├── .editorconfig ├── .github ├── ISSUE_TEMPLATE.md └── PULL_REQUEST_TEMPLATE.md ├── .gitignore ├── .gitmodules ├── .travis.yml ├── AUTHORS.rst ├── CONTRIBUTING.rst ├── HISTORY.rst ├── LICENSE ├── MANIFEST.in ├── Makefile ├── README.rst ├── codecov.yml ├── conda_requirements.txt ├── docs ├── CHANGELOG_sphinx_deployment.md ├── LICENSE_sphinx_deployment ├── Makefile ├── README_sphinx_deployment.md ├── _static │ ├── exon_vs_junction_start_stop.ai │ ├── outrigger_franken-events.ai │ ├── outrigger_index-150ppi.png │ ├── outrigger_index-1x.png │ ├── outrigger_index-300ppi.png │ ├── outrigger_index.ai │ ├── outrigger_index.svg │ ├── outrigger_index_flanking_exons.ai │ ├── outrigger_index_mxe.ai │ ├── outrigger_index_se.ai │ ├── outrigger_overview-150ppi.png │ ├── outrigger_overview-1x.png │ ├── outrigger_overview-300ppi.png │ ├── outrigger_overview_v1.ai │ ├── outrigger_overview_v1.svg │ ├── outrigger_overview_v2.ai │ ├── outrigger_psi-150ppi.png │ ├── outrigger_psi-1x.png │ ├── outrigger_psi-300ppi.png │ ├── outrigger_psi_pathological_cases.ai │ ├── outrigger_psi_v1.ai │ ├── outrigger_psi_v2.ai │ ├── outrigger_psi_v3.ai │ ├── outrigger_validate-150ppi.png │ ├── outrigger_validate-1x.png │ ├── outrigger_validate-300ppi.png │ ├── outrigger_validate.ai │ └── outrigger_validate.svg ├── authors.rst ├── conf.py ├── contributing.rst ├── history.rst ├── index.rst ├── installation.rst ├── make.bat ├── releases │ ├── checklist.md │ ├── template.rst │ ├── v0.1.0.rst │ ├── v0.2.0.rst │ ├── v0.2.1.rst │ ├── v0.2.2.rst │ ├── v0.2.3.rst │ ├── v0.2.4.rst │ ├── v0.2.5.rst │ ├── v0.2.6.rst │ ├── v0.2.7.rst │ ├── v0.2.8.rst │ ├── v0.2.9.rst │ ├── v1.0.0.rst │ └── v1.1.0.rst ├── requirements.txt ├── rsync_exclude ├── sphinx_deployment.mk ├── subcommands │ ├── outrigger_index.rst │ ├── outrigger_psi.rst │ └── outrigger_validate.rst ├── test_transcripts.png ├── tutorial.rst └── usage.rst ├── environment.yml ├── logo ├── logo-150ppi.png ├── logo-1x.png ├── logo-300ppi.png ├── logo.ai └── logo.svg ├── make_test_data.ipynb ├── meta.yml ├── outrigger ├── __init__.py ├── commandline.py ├── common.py ├── index │ ├── __init__.py │ ├── adjacencies.py │ └── events.py ├── io │ ├── __init__.py │ ├── bam.py │ ├── core.py │ ├── gtf.py │ └── star.py ├── psi │ ├── __init__.py │ └── compute.py ├── region.py ├── tests │ ├── __init__.py │ ├── conftest.py │ ├── data │ │ ├── arabdopsis │ │ │ └── unprocessed │ │ │ │ ├── Arabidopsis_thaliana.TAIR10.31.chr4.gtf │ │ │ │ ├── Arabidopsis_thaliana.TAIR10.31.chr4.subset.gtf │ │ │ │ ├── rna.chr4.SJ.out.tab │ │ │ │ └── rna.chr4.subset.SJ.out.tab │ │ ├── simulated │ │ │ ├── outrigger_output │ │ │ │ └── index │ │ │ │ │ ├── mxe │ │ │ │ │ ├── events_negative_strand.csv │ │ │ │ │ └── events_positive_strand.csv │ │ │ │ │ └── se │ │ │ │ │ ├── events_negative_strand.csv │ │ │ │ │ └── events_positive_strand.csv │ │ │ ├── psi │ │ │ │ ├── mutually_exclusive_exon_junctions_psi.csv │ │ │ │ └── skipped_exon_junctions_psi.csv │ │ │ ├── unprocessed │ │ │ │ └── true_splice_junctions.csv │ │ │ └── validate_negative_control │ │ │ │ ├── chromsizes │ │ │ │ ├── exon2_downstream_splice_sites.csv │ │ │ │ ├── exon2_upstream_splice_sites.csv │ │ │ │ ├── genome.docx │ │ │ │ ├── genome.fasta │ │ │ │ ├── genome.fasta.fai │ │ │ │ ├── outrigger_output │ │ │ │ └── index │ │ │ │ │ ├── mxe │ │ │ │ │ ├── events.csv │ │ │ │ │ ├── exon1.bed │ │ │ │ │ ├── exon2.bed │ │ │ │ │ ├── exon3.bed │ │ │ │ │ ├── exon4.bed │ │ │ │ │ ├── splice_sites.csv │ │ │ │ │ └── validated │ │ │ │ │ │ └── events.csv │ │ │ │ │ └── se │ │ │ │ │ ├── events.csv │ │ │ │ │ ├── exon1.bed │ │ │ │ │ ├── exon2.bed │ │ │ │ │ ├── exon3.bed │ │ │ │ │ ├── splice_sites.csv │ │ │ │ │ └── validated │ │ │ │ │ └── events.csv │ │ │ │ └── ~$genome.docx │ │ ├── tasic2016 │ │ │ ├── intermediate │ │ │ │ ├── adjacent_junctions_single_exon.csv │ │ │ │ ├── bam │ │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_1-SRR2140356-GSM1840944_R1.polyATrim.adapterTrim.rmRep.sorted.rg.subset.sorted.bam.outrigger_junction_reads_ignore-multimappingFalse.csv │ │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_1-SRR2140356-GSM1840944_R1.polyATrim.adapterTrim.rmRep.sorted.rg.subset.sorted.bam.outrigger_junction_reads_ignore-multimappingTrue.csv │ │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_1-SRR2140356-GSM1840944_R1.polyATrim.adapterTrim.rmRep.sorted.rg.subset.sorted.junction_reads_ignore-multimappingFalse.csv │ │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_1-SRR2140356-GSM1840944_R1.polyATrim.adapterTrim.rmRep.sorted.rg.subset.sorted.junction_reads_ignore-multimappingFalse_empty_multi.csv │ │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_1-SRR2140356-GSM1840944_R1.polyATrim.adapterTrim.rmRep.sorted.rg.subset.sorted.junction_reads_ignore-multimappingFalse_empty_uniquely.csv │ │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_1-SRR2140356-GSM1840944_R1.polyATrim.adapterTrim.rmRep.sorted.rg.subset.sorted.junction_reads_ignore-multimappingTrue.csv │ │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_1-SRR2140356-GSM1840944_R1.polyATrim.adapterTrim.rmRep.sorted.rg.subset.sorted.junction_reads_ignore-multimappingTrue_empty_multi.csv │ │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_1-SRR2140356-GSM1840944_R1.polyATrim.adapterTrim.rmRep.sorted.rg.subset.sorted.junction_reads_ignore-multimappingTrue_empty_uniquely.csv │ │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_1-SRR2140356-GSM1840944_R1.polyATrim.adapterTrim.rmRep.sorted.rg.subset.sorted.junction_reads_multimapped.csv │ │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_1-SRR2140356-GSM1840944_R1.polyATrim.adapterTrim.rmRep.sorted.rg.subset.sorted.junction_reads_uniquelymapped.csv │ │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_1-SRR2140356-GSM1840944_R1.polyATrim.adapterTrim.rmRep.sorted.rg.subset.sorted.uniquely_mapped_summed.csv │ │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_2-SRR2140357-GSM1840945_R1.polyATrim.adapterTrim.rmRep.sorted.rg.subset.sorted.bam.outrigger_junction_reads_ignore-multimappingFalse.csv │ │ │ │ │ └── CAV_LP_Ipsi_tdTpos_cell_2-SRR2140357-GSM1840945_R1.polyATrim.adapterTrim.rmRep.sorted.rg.subset.sorted.bam.outrigger_junction_reads_ignore-multimappingTrue.csv │ │ │ │ ├── index │ │ │ │ │ └── star │ │ │ │ │ │ ├── splice_junctions_ignore_multimappingFalse.csv │ │ │ │ │ │ └── splice_junctions_ignore_multimappingTrue.csv │ │ │ │ ├── junction_metadata.csv │ │ │ │ ├── junctions_genome_adjacent_downstream.csv │ │ │ │ ├── junctions_genome_adjacent_to_exon_downstream.csv │ │ │ │ ├── junctions_genome_adjacent_to_exon_upstream.csv │ │ │ │ ├── junctions_genome_adjacent_upstream.csv │ │ │ │ ├── neighboring_exons.csv │ │ │ │ ├── psi │ │ │ │ │ ├── mxe │ │ │ │ │ │ └── summary.csv │ │ │ │ │ ├── mxe_event_df.csv │ │ │ │ │ ├── se │ │ │ │ │ │ └── summary.csv │ │ │ │ │ ├── se_event_df.csv │ │ │ │ │ └── splice_junction_reads.csv │ │ │ │ └── single_junction_exon_triple.csv │ │ │ ├── outrigger_output │ │ │ │ ├── index │ │ │ │ │ ├── exon_direction_junction.csv │ │ │ │ │ ├── gtf │ │ │ │ │ │ ├── gencode.vM10.annotation.subset.gtf │ │ │ │ │ │ ├── gencode.vM10.annotation.subset.gtf.db │ │ │ │ │ │ └── novel_exons.gtf │ │ │ │ │ ├── mxe │ │ │ │ │ │ ├── event.bed │ │ │ │ │ │ ├── events.csv │ │ │ │ │ │ ├── exon1.bed │ │ │ │ │ │ ├── exon2.bed │ │ │ │ │ │ ├── exon3.bed │ │ │ │ │ │ ├── exon4.bed │ │ │ │ │ │ ├── intron.bed │ │ │ │ │ │ ├── splice_sites.csv │ │ │ │ │ │ └── validated │ │ │ │ │ │ │ └── events.csv │ │ │ │ │ └── se │ │ │ │ │ │ ├── event.bed │ │ │ │ │ │ ├── events.csv │ │ │ │ │ │ ├── exon1.bed │ │ │ │ │ │ ├── exon2.bed │ │ │ │ │ │ ├── exon3.bed │ │ │ │ │ │ ├── intron.bed │ │ │ │ │ │ ├── splice_sites.csv │ │ │ │ │ │ └── validated │ │ │ │ │ │ └── events.csv │ │ │ │ ├── junctions │ │ │ │ │ ├── metadata.csv │ │ │ │ │ └── reads.csv │ │ │ │ └── psi │ │ │ │ │ ├── mxe │ │ │ │ │ ├── psi.csv │ │ │ │ │ └── summary.csv │ │ │ │ │ ├── outrigger_psi.csv │ │ │ │ │ ├── outrigger_summary.csv │ │ │ │ │ └── se │ │ │ │ │ ├── psi.csv │ │ │ │ │ └── summary.csv │ │ │ ├── outrigger_output_bam │ │ │ │ ├── index │ │ │ │ │ ├── exon_direction_junction.csv │ │ │ │ │ ├── gtf │ │ │ │ │ │ ├── gencode.vM10.annotation.subset.gtf │ │ │ │ │ │ ├── gencode.vM10.annotation.subset.gtf.db │ │ │ │ │ │ └── novel_exons.gtf │ │ │ │ │ ├── mxe │ │ │ │ │ │ ├── event.bed │ │ │ │ │ │ ├── events.csv │ │ │ │ │ │ ├── exon1.bed │ │ │ │ │ │ ├── exon2.bed │ │ │ │ │ │ ├── exon3.bed │ │ │ │ │ │ ├── exon4.bed │ │ │ │ │ │ └── intron.bed │ │ │ │ │ └── se │ │ │ │ │ │ ├── event.bed │ │ │ │ │ │ ├── events.csv │ │ │ │ │ │ ├── exon1.bed │ │ │ │ │ │ ├── exon2.bed │ │ │ │ │ │ ├── exon3.bed │ │ │ │ │ │ └── intron.bed │ │ │ │ ├── junctions │ │ │ │ │ ├── metadata.csv │ │ │ │ │ └── reads.csv │ │ │ │ └── psi │ │ │ │ │ ├── mxe │ │ │ │ │ ├── psi.csv │ │ │ │ │ └── summary.csv │ │ │ │ │ ├── outrigger_psi.csv │ │ │ │ │ ├── outrigger_summary.csv │ │ │ │ │ └── se │ │ │ │ │ ├── psi.csv │ │ │ │ │ └── summary.csv │ │ │ └── unprocessed │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_igv_load.txt │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_igv_session.xml │ │ │ │ ├── bam │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_1-SRR2140356-GSM1840944_R1.polyATrim.adapterTrim.rmRep.sorted.rg.subset.sorted.bam │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_1-SRR2140356-GSM1840944_R1.polyATrim.adapterTrim.rmRep.sorted.rg.subset.sorted.bam.bai │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_2-SRR2140357-GSM1840945_R1.polyATrim.adapterTrim.rmRep.sorted.rg.subset.sorted.bam │ │ │ │ └── CAV_LP_Ipsi_tdTpos_cell_2-SRR2140357-GSM1840945_R1.polyATrim.adapterTrim.rmRep.sorted.rg.subset.sorted.bam.bai │ │ │ │ ├── gtf │ │ │ │ ├── gencode.vM10.annotation.snap25.myl6.gtf │ │ │ │ ├── gencode.vM10.annotation.snap25.myl6.gtf.db │ │ │ │ ├── gencode.vM10.annotation.snap25.myl6.gtf.db.bak │ │ │ │ ├── gencode.vM10.annotation.subset.gtf │ │ │ │ ├── gencode.vM10.annotation.subset.gtf.db │ │ │ │ ├── gencode.vM10.annotation.subset.with.novel.gtf │ │ │ │ └── gencode.vM10.annotation.subset.with.novel.gtf.db │ │ │ │ ├── samtools_filter_subset.sh │ │ │ │ └── sj_out_tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_1-SRR2140356-GSM1840944_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_10-SRR2140365-GSM1840953_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_11-SRR2140366-GSM1840954_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_12-SRR2140367-GSM1840955_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_13-SRR2140368-GSM1840956_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_14-SRR2140369-GSM1840957_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_15-SRR2140370-GSM1840958_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_16-SRR2140371-GSM1840959_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_17-SRR2140372-GSM1840960_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_18-SRR2140373-GSM1840961_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_19-SRR2140374-GSM1840962_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_2-SRR2140357-GSM1840945_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_20-SRR2140375-GSM1840963_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_21-SRR2140376-GSM1840964_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_22-SRR2140377-GSM1840965_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_23-SRR2140378-GSM1840966_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_24-SRR2140379-GSM1840967_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_25-SRR2140380-GSM1840968_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_26-SRR2140381-GSM1840969_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_27-SRR2140382-GSM1840970_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_28-SRR2140383-GSM1840971_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_29-SRR2140384-GSM1840972_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_3-SRR2140358-GSM1840946_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_30-SRR2140385-GSM1840973_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_31-SRR2140386-GSM1840974_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_32-SRR2140387-GSM1840975_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_33-SRR2140388-GSM1840976_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_34-SRR2140389-GSM1840977_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_35-SRR2140390-GSM1840978_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_36-SRR2140391-GSM1840979_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_37-SRR2140392-GSM1840980_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_38-SRR2140393-GSM1840981_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_39-SRR2140394-GSM1840982_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_4-SRR2140359-GSM1840947_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_40-SRR2140395-GSM1840983_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_41-SRR2140396-GSM1840984_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_42-SRR2140397-GSM1840985_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_43-SRR2140398-GSM1840986_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_5-SRR2140360-GSM1840948_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_6-SRR2140361-GSM1840949_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_7-SRR2140362-GSM1840950_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_8-SRR2140363-GSM1840951_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── CAV_LP_Ipsi_tdTpos_cell_9-SRR2140364-GSM1840952_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_CTX_10pg_1-SRR2140404-GSM1840992_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_CTX_10pg_2-SRR2140405-GSM1840993_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_CTX_10pg_3-SRR2140406-GSM1840994_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_CTX_10pg_4-SRR2140407-GSM1840995_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_CTX_10pg_5-SRR2140408-GSM1840996_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_CTX_10pg_6-SRR2140409-GSM1840997_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_CTX_250ng_1-SRR2140410-GSM1840998_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_CTX_250ng_2-SRR2140411-GSM1840999_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_1-SRR2139859-GSM1840447_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_10-SRR2139868-GSM1840456_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_11-SRR2139869-GSM1840457_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_12-SRR2139870-GSM1840458_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_13-SRR2139871-GSM1840459_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_14-SRR2139872-GSM1840460_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_15-SRR2139873-GSM1840461_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_16-SRR2139874-GSM1840462_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_17-SRR2139875-GSM1840463_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_18-SRR2139876-GSM1840464_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_19-SRR2139877-GSM1840465_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_2-SRR2139860-GSM1840448_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_20-SRR2139878-GSM1840466_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_21-SRR2139879-GSM1840467_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_22-SRR2139880-GSM1840468_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_23-SRR2139881-GSM1840469_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_3-SRR2139861-GSM1840449_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_4-SRR2139862-GSM1840450_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_5-SRR2139863-GSM1840451_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_6-SRR2139864-GSM1840452_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_7-SRR2139865-GSM1840453_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_8-SRR2139866-GSM1840454_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTnegative_cell_9-SRR2139867-GSM1840455_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_1-SRR2139669-GSM1840257_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_10-SRR2139678-GSM1840266_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_100-SRR2139768-GSM1840356_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_101-SRR2139769-GSM1840357_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_102-SRR2139770-GSM1840358_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_103-SRR2139771-GSM1840359_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_104-SRR2139772-GSM1840360_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_105-SRR2139773-GSM1840361_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_106-SRR2139774-GSM1840362_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_107-SRR2139775-GSM1840363_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_108-SRR2139776-GSM1840364_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_109-SRR2139777-GSM1840365_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_11-SRR2139679-GSM1840267_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_110-SRR2139778-GSM1840366_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_111-SRR2139779-GSM1840367_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_112-SRR2139780-GSM1840368_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_113-SRR2139781-GSM1840369_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_114-SRR2139782-GSM1840370_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_115-SRR2139783-GSM1840371_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_116-SRR2139784-GSM1840372_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_117-SRR2139785-GSM1840373_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_118-SRR2139786-GSM1840374_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_119-SRR2139787-GSM1840375_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_12-SRR2139680-GSM1840268_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_120-SRR2139788-GSM1840376_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_121-SRR2139789-GSM1840377_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_122-SRR2139790-GSM1840378_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_123-SRR2139791-GSM1840379_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_124-SRR2139792-GSM1840380_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_125-SRR2139793-GSM1840381_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_126-SRR2139794-GSM1840382_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_127-SRR2139795-GSM1840383_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_128-SRR2139796-GSM1840384_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_129-SRR2139797-GSM1840385_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_13-SRR2139681-GSM1840269_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_130-SRR2139798-GSM1840386_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_131-SRR2139799-GSM1840387_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_132-SRR2139800-GSM1840388_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_133-SRR2139801-GSM1840389_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_134-SRR2139802-GSM1840390_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_135-SRR2139803-GSM1840391_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_136-SRR2139804-GSM1840392_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_137-SRR2139805-GSM1840393_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_138-SRR2139806-GSM1840394_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_139-SRR2139807-GSM1840395_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_14-SRR2139682-GSM1840270_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_140-SRR2139808-GSM1840396_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_141-SRR2139809-GSM1840397_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_142-SRR2139810-GSM1840398_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_143-SRR2139811-GSM1840399_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_144-SRR2139812-GSM1840400_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_145-SRR2139813-GSM1840401_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_146-SRR2139814-GSM1840402_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_147-SRR2139815-GSM1840403_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_148-SRR2139816-GSM1840404_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_149-SRR2139817-GSM1840405_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_15-SRR2139683-GSM1840271_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_150-SRR2139818-GSM1840406_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_151-SRR2139819-GSM1840407_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_152-SRR2139820-GSM1840408_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_153-SRR2139821-GSM1840409_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_154-SRR2139822-GSM1840410_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_155-SRR2139823-GSM1840411_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_156-SRR2139824-GSM1840412_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_157-SRR2139825-GSM1840413_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_158-SRR2139826-GSM1840414_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_159-SRR2139827-GSM1840415_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_16-SRR2139684-GSM1840272_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_160-SRR2139828-GSM1840416_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_161-SRR2139829-GSM1840417_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_162-SRR2139830-GSM1840418_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_163-SRR2139831-GSM1840419_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_164-SRR2139832-GSM1840420_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_165-SRR2139833-GSM1840421_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_166-SRR2139834-GSM1840422_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_167-SRR2139835-GSM1840423_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_168-SRR2139836-GSM1840424_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_169-SRR2139837-GSM1840425_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_17-SRR2139685-GSM1840273_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_170-SRR2139838-GSM1840426_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_171-SRR2139839-GSM1840427_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_172-SRR2139840-GSM1840428_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_173-SRR2139841-GSM1840429_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_174-SRR2139842-GSM1840430_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_175-SRR2139843-GSM1840431_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_176-SRR2139844-GSM1840432_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_177-SRR2139845-GSM1840433_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_178-SRR2139846-GSM1840434_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_179-SRR2139847-GSM1840435_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_18-SRR2139686-GSM1840274_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_180-SRR2139848-GSM1840436_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_181-SRR2139849-GSM1840437_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_182-SRR2139850-GSM1840438_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_183-SRR2139851-GSM1840439_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_184-SRR2139852-GSM1840440_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_185-SRR2139853-GSM1840441_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_186-SRR2139854-GSM1840442_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_187-SRR2139855-GSM1840443_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_188-SRR2139856-GSM1840444_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_189-SRR2139857-GSM1840445_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_19-SRR2139687-GSM1840275_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_190-SRR2139858-GSM1840446_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_2-SRR2139670-GSM1840258_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_20-SRR2139688-GSM1840276_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_21-SRR2139689-GSM1840277_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_22-SRR2139690-GSM1840278_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_23-SRR2139691-GSM1840279_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_24-SRR2139692-GSM1840280_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_25-SRR2139693-GSM1840281_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_26-SRR2139694-GSM1840282_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_27-SRR2139695-GSM1840283_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_28-SRR2139696-GSM1840284_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_29-SRR2139697-GSM1840285_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_3-SRR2139671-GSM1840259_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_30-SRR2139698-GSM1840286_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_31-SRR2139699-GSM1840287_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_32-SRR2139700-GSM1840288_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_33-SRR2139701-GSM1840289_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_34-SRR2139702-GSM1840290_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_35-SRR2139703-GSM1840291_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_36-SRR2139704-GSM1840292_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_37-SRR2139705-GSM1840293_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_38-SRR2139706-GSM1840294_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_39-SRR2139707-GSM1840295_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_4-SRR2139672-GSM1840260_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_40-SRR2139708-GSM1840296_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_41-SRR2139709-GSM1840297_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_42-SRR2139710-GSM1840298_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_43-SRR2139711-GSM1840299_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_44-SRR2139712-GSM1840300_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_45-SRR2139713-GSM1840301_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_46-SRR2139714-GSM1840302_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_47-SRR2139715-GSM1840303_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_48-SRR2139716-GSM1840304_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_49-SRR2139717-GSM1840305_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_5-SRR2139673-GSM1840261_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_50-SRR2139718-GSM1840306_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_51-SRR2139719-GSM1840307_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_52-SRR2139720-GSM1840308_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_53-SRR2139721-GSM1840309_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_54-SRR2139722-GSM1840310_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_55-SRR2139723-GSM1840311_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_56-SRR2139724-GSM1840312_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_57-SRR2139725-GSM1840313_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_58-SRR2139726-GSM1840314_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_59-SRR2139727-GSM1840315_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_6-SRR2139674-GSM1840262_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_60-SRR2139728-GSM1840316_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_61-SRR2139729-GSM1840317_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_62-SRR2139730-GSM1840318_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_63-SRR2139731-GSM1840319_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_64-SRR2139732-GSM1840320_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_65-SRR2139733-GSM1840321_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_66-SRR2139734-GSM1840322_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_67-SRR2139735-GSM1840323_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_68-SRR2139736-GSM1840324_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_69-SRR2139737-GSM1840325_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_7-SRR2139675-GSM1840263_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_70-SRR2139738-GSM1840326_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_71-SRR2139739-GSM1840327_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_72-SRR2139740-GSM1840328_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_73-SRR2139741-GSM1840329_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_74-SRR2139742-GSM1840330_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_75-SRR2139743-GSM1840331_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_76-SRR2139744-GSM1840332_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_77-SRR2139745-GSM1840333_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_78-SRR2139746-GSM1840334_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_79-SRR2139747-GSM1840335_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_8-SRR2139676-GSM1840264_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_80-SRR2139748-GSM1840336_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_81-SRR2139749-GSM1840337_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_82-SRR2139750-GSM1840338_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_83-SRR2139751-GSM1840339_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_84-SRR2139752-GSM1840340_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_85-SRR2139753-GSM1840341_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_86-SRR2139754-GSM1840342_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_87-SRR2139755-GSM1840343_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_88-SRR2139756-GSM1840344_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_89-SRR2139757-GSM1840345_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_9-SRR2139677-GSM1840265_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_90-SRR2139758-GSM1840346_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_91-SRR2139759-GSM1840347_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_92-SRR2139760-GSM1840348_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_93-SRR2139761-GSM1840349_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_94-SRR2139762-GSM1840350_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_95-SRR2139763-GSM1840351_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_96-SRR2139764-GSM1840352_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_97-SRR2139765-GSM1840353_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ ├── Rbp4_tdTpositive_cell_98-SRR2139766-GSM1840354_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ │ └── Rbp4_tdTpositive_cell_99-SRR2139767-GSM1840355_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ └── treutlein2014 │ │ │ ├── intermediate │ │ │ ├── index │ │ │ │ └── adjacencies │ │ │ │ │ ├── adjacent_junctions_single_exon.csv │ │ │ │ │ ├── junctions_genome_adjacent_to_exon_downstream.csv │ │ │ │ │ ├── junctions_genome_adjacent_to_exon_upstream.csv │ │ │ │ │ ├── neighboring_exons.csv │ │ │ │ │ └── single_junction_exon_triple.csv │ │ │ └── io │ │ │ │ └── star │ │ │ │ ├── junction_metadata.csv │ │ │ │ ├── splice_junctions_multimappingFalse.csv │ │ │ │ └── splice_junctions_multimappingTrue.csv │ │ │ └── unprocessed │ │ │ ├── gtf │ │ │ ├── gencode.vM2.annotation.fgfr2.gtf │ │ │ └── gencode.vM2.annotation.fgfr2.gtf.db │ │ │ └── sj_out_tab │ │ │ ├── SRR1033853_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033854_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033855_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033856_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033857_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033858_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033859_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033860_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033861_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033862_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033863_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033864_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033865_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033866_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033867_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033868_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033869_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033870_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033871_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033872_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033873_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033874_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033875_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033876_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033877_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033878_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033879_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033880_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033881_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033882_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033883_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033884_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033885_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033886_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033887_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033888_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033889_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033890_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033891_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033892_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033893_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033894_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033895_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033896_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033897_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033898_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033899_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033900_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033901_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033902_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033903_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033904_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033905_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033906_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033907_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033908_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033909_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033910_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033911_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033912_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033913_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033914_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033915_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033916_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033917_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033918_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033919_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033920_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033921_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033922_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033923_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033924_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033925_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033926_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033927_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033928_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033929_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033930_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033931_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033932_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033933_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033934_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033935_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033936_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033937_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033938_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033939_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033940_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033941_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033942_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033943_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033944_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033945_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033946_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033947_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033948_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033949_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033950_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033951_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033952_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033953_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033954_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033955_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033956_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033957_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033958_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033959_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033960_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033961_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033962_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033963_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033964_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033965_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033966_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033967_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033968_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033969_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033970_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033971_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033972_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033973_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033974_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033975_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033976_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033977_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033978_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033979_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033980_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033981_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033982_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033983_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033984_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033985_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033986_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033987_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033988_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033989_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033990_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033991_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033992_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033993_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033994_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033995_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033996_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033997_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033998_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1033999_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034000_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034001_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034002_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034003_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034004_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034005_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034006_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034007_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034008_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034009_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034010_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034011_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034012_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034013_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034014_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034015_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034016_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034017_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034018_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034019_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034020_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034021_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034022_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034023_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034024_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034025_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034026_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034027_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034028_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034029_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034030_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034031_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034032_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034033_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034034_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034035_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034036_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034037_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034038_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034039_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034040_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034041_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034042_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034043_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034044_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034045_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034046_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034047_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034048_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034049_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034050_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034051_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ ├── SRR1034052_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ │ │ └── SRR1034053_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab │ ├── hmmscan_out.txt │ ├── index │ │ ├── __init__.py │ │ ├── test_adjacencies.py │ │ ├── test_events.py │ │ └── test_region.py │ ├── io │ │ ├── __init__.py │ │ ├── test_bam.py │ │ ├── test_gtf.py │ │ └── test_star.py │ ├── psi │ │ ├── __init__.py │ │ └── test_compute.py │ ├── test.bed │ ├── test.chromsizes │ ├── test.fasta │ ├── test.fasta.fai │ ├── test_commandline.py │ └── validate │ │ ├── __init__.py │ │ └── test_check_splice_sites.py ├── util.py └── validate │ ├── __init__.py │ └── check_splice_sites.py ├── requirements.txt ├── setup.cfg ├── setup.py └── testing └── environment_no_python.yml /.editorconfig: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/.editorconfig -------------------------------------------------------------------------------- /.github/ISSUE_TEMPLATE.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/.github/ISSUE_TEMPLATE.md -------------------------------------------------------------------------------- /.github/PULL_REQUEST_TEMPLATE.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/.github/PULL_REQUEST_TEMPLATE.md -------------------------------------------------------------------------------- /.gitignore: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/.gitignore -------------------------------------------------------------------------------- /.gitmodules: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/.gitmodules -------------------------------------------------------------------------------- /.travis.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/.travis.yml -------------------------------------------------------------------------------- /AUTHORS.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/AUTHORS.rst -------------------------------------------------------------------------------- /CONTRIBUTING.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/CONTRIBUTING.rst -------------------------------------------------------------------------------- /HISTORY.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/HISTORY.rst -------------------------------------------------------------------------------- /LICENSE: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/LICENSE -------------------------------------------------------------------------------- /MANIFEST.in: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/MANIFEST.in -------------------------------------------------------------------------------- /Makefile: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/Makefile -------------------------------------------------------------------------------- /README.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/README.rst -------------------------------------------------------------------------------- /codecov.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/codecov.yml -------------------------------------------------------------------------------- /conda_requirements.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/conda_requirements.txt -------------------------------------------------------------------------------- /docs/CHANGELOG_sphinx_deployment.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/CHANGELOG_sphinx_deployment.md -------------------------------------------------------------------------------- /docs/LICENSE_sphinx_deployment: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/LICENSE_sphinx_deployment -------------------------------------------------------------------------------- /docs/Makefile: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/Makefile -------------------------------------------------------------------------------- /docs/README_sphinx_deployment.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/README_sphinx_deployment.md -------------------------------------------------------------------------------- /docs/_static/exon_vs_junction_start_stop.ai: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/exon_vs_junction_start_stop.ai -------------------------------------------------------------------------------- /docs/_static/outrigger_franken-events.ai: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_franken-events.ai -------------------------------------------------------------------------------- /docs/_static/outrigger_index-150ppi.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_index-150ppi.png -------------------------------------------------------------------------------- /docs/_static/outrigger_index-1x.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_index-1x.png -------------------------------------------------------------------------------- /docs/_static/outrigger_index-300ppi.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_index-300ppi.png -------------------------------------------------------------------------------- /docs/_static/outrigger_index.ai: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_index.ai -------------------------------------------------------------------------------- /docs/_static/outrigger_index.svg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_index.svg -------------------------------------------------------------------------------- /docs/_static/outrigger_index_flanking_exons.ai: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_index_flanking_exons.ai -------------------------------------------------------------------------------- /docs/_static/outrigger_index_mxe.ai: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_index_mxe.ai -------------------------------------------------------------------------------- /docs/_static/outrigger_index_se.ai: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_index_se.ai -------------------------------------------------------------------------------- /docs/_static/outrigger_overview-150ppi.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_overview-150ppi.png -------------------------------------------------------------------------------- /docs/_static/outrigger_overview-1x.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_overview-1x.png -------------------------------------------------------------------------------- /docs/_static/outrigger_overview-300ppi.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_overview-300ppi.png -------------------------------------------------------------------------------- /docs/_static/outrigger_overview_v1.ai: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_overview_v1.ai -------------------------------------------------------------------------------- /docs/_static/outrigger_overview_v1.svg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_overview_v1.svg -------------------------------------------------------------------------------- /docs/_static/outrigger_overview_v2.ai: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_overview_v2.ai -------------------------------------------------------------------------------- /docs/_static/outrigger_psi-150ppi.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_psi-150ppi.png -------------------------------------------------------------------------------- /docs/_static/outrigger_psi-1x.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_psi-1x.png -------------------------------------------------------------------------------- /docs/_static/outrigger_psi-300ppi.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_psi-300ppi.png -------------------------------------------------------------------------------- /docs/_static/outrigger_psi_pathological_cases.ai: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_psi_pathological_cases.ai -------------------------------------------------------------------------------- /docs/_static/outrigger_psi_v1.ai: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_psi_v1.ai -------------------------------------------------------------------------------- /docs/_static/outrigger_psi_v2.ai: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_psi_v2.ai -------------------------------------------------------------------------------- /docs/_static/outrigger_psi_v3.ai: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_psi_v3.ai -------------------------------------------------------------------------------- /docs/_static/outrigger_validate-150ppi.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_validate-150ppi.png -------------------------------------------------------------------------------- /docs/_static/outrigger_validate-1x.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_validate-1x.png -------------------------------------------------------------------------------- /docs/_static/outrigger_validate-300ppi.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_validate-300ppi.png -------------------------------------------------------------------------------- /docs/_static/outrigger_validate.ai: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_validate.ai -------------------------------------------------------------------------------- /docs/_static/outrigger_validate.svg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/_static/outrigger_validate.svg -------------------------------------------------------------------------------- /docs/authors.rst: -------------------------------------------------------------------------------- 1 | .. include:: ../AUTHORS.rst 2 | -------------------------------------------------------------------------------- /docs/conf.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/conf.py -------------------------------------------------------------------------------- /docs/contributing.rst: -------------------------------------------------------------------------------- 1 | .. include:: ../CONTRIBUTING.rst 2 | -------------------------------------------------------------------------------- /docs/history.rst: -------------------------------------------------------------------------------- 1 | .. include:: ../HISTORY.rst 2 | -------------------------------------------------------------------------------- /docs/index.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/index.rst -------------------------------------------------------------------------------- /docs/installation.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/installation.rst -------------------------------------------------------------------------------- /docs/make.bat: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/make.bat -------------------------------------------------------------------------------- /docs/releases/checklist.md: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/releases/checklist.md -------------------------------------------------------------------------------- /docs/releases/template.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/releases/template.rst -------------------------------------------------------------------------------- /docs/releases/v0.1.0.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/releases/v0.1.0.rst -------------------------------------------------------------------------------- /docs/releases/v0.2.0.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/releases/v0.2.0.rst -------------------------------------------------------------------------------- /docs/releases/v0.2.1.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/releases/v0.2.1.rst -------------------------------------------------------------------------------- /docs/releases/v0.2.2.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/releases/v0.2.2.rst -------------------------------------------------------------------------------- /docs/releases/v0.2.3.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/releases/v0.2.3.rst -------------------------------------------------------------------------------- /docs/releases/v0.2.4.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/releases/v0.2.4.rst -------------------------------------------------------------------------------- /docs/releases/v0.2.5.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/releases/v0.2.5.rst -------------------------------------------------------------------------------- /docs/releases/v0.2.6.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/releases/v0.2.6.rst -------------------------------------------------------------------------------- /docs/releases/v0.2.7.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/releases/v0.2.7.rst -------------------------------------------------------------------------------- /docs/releases/v0.2.8.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/releases/v0.2.8.rst -------------------------------------------------------------------------------- /docs/releases/v0.2.9.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/releases/v0.2.9.rst -------------------------------------------------------------------------------- /docs/releases/v1.0.0.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/releases/v1.0.0.rst -------------------------------------------------------------------------------- /docs/releases/v1.1.0.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/releases/v1.1.0.rst -------------------------------------------------------------------------------- /docs/requirements.txt: -------------------------------------------------------------------------------- 1 | sphinx 2 | numpydoc 3 | -------------------------------------------------------------------------------- /docs/rsync_exclude: -------------------------------------------------------------------------------- 1 | .git 2 | -------------------------------------------------------------------------------- /docs/sphinx_deployment.mk: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/sphinx_deployment.mk -------------------------------------------------------------------------------- /docs/subcommands/outrigger_index.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/subcommands/outrigger_index.rst -------------------------------------------------------------------------------- /docs/subcommands/outrigger_psi.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/subcommands/outrigger_psi.rst -------------------------------------------------------------------------------- /docs/subcommands/outrigger_validate.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/subcommands/outrigger_validate.rst -------------------------------------------------------------------------------- /docs/test_transcripts.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/test_transcripts.png -------------------------------------------------------------------------------- /docs/tutorial.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/tutorial.rst -------------------------------------------------------------------------------- /docs/usage.rst: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/docs/usage.rst -------------------------------------------------------------------------------- /environment.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/environment.yml -------------------------------------------------------------------------------- /logo/logo-150ppi.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/logo/logo-150ppi.png -------------------------------------------------------------------------------- /logo/logo-1x.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/logo/logo-1x.png -------------------------------------------------------------------------------- /logo/logo-300ppi.png: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/logo/logo-300ppi.png -------------------------------------------------------------------------------- /logo/logo.ai: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/logo/logo.ai -------------------------------------------------------------------------------- /logo/logo.svg: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/logo/logo.svg -------------------------------------------------------------------------------- /make_test_data.ipynb: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/make_test_data.ipynb -------------------------------------------------------------------------------- /meta.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/meta.yml -------------------------------------------------------------------------------- /outrigger/__init__.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/__init__.py -------------------------------------------------------------------------------- /outrigger/commandline.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/commandline.py -------------------------------------------------------------------------------- /outrigger/common.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/common.py -------------------------------------------------------------------------------- /outrigger/index/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/index/adjacencies.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/index/adjacencies.py -------------------------------------------------------------------------------- /outrigger/index/events.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/index/events.py -------------------------------------------------------------------------------- /outrigger/io/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/io/bam.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/io/bam.py -------------------------------------------------------------------------------- /outrigger/io/core.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/io/core.py -------------------------------------------------------------------------------- /outrigger/io/gtf.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/io/gtf.py -------------------------------------------------------------------------------- /outrigger/io/star.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/io/star.py -------------------------------------------------------------------------------- /outrigger/psi/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/psi/compute.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/psi/compute.py -------------------------------------------------------------------------------- /outrigger/region.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/region.py -------------------------------------------------------------------------------- /outrigger/tests/__init__.py: -------------------------------------------------------------------------------- 1 | # -*- coding: utf-8 -*- 2 | -------------------------------------------------------------------------------- /outrigger/tests/conftest.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/conftest.py -------------------------------------------------------------------------------- /outrigger/tests/data/arabdopsis/unprocessed/Arabidopsis_thaliana.TAIR10.31.chr4.gtf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/arabdopsis/unprocessed/Arabidopsis_thaliana.TAIR10.31.chr4.gtf -------------------------------------------------------------------------------- /outrigger/tests/data/arabdopsis/unprocessed/Arabidopsis_thaliana.TAIR10.31.chr4.subset.gtf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/arabdopsis/unprocessed/Arabidopsis_thaliana.TAIR10.31.chr4.subset.gtf -------------------------------------------------------------------------------- /outrigger/tests/data/arabdopsis/unprocessed/rna.chr4.SJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/arabdopsis/unprocessed/rna.chr4.SJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/arabdopsis/unprocessed/rna.chr4.subset.SJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/arabdopsis/unprocessed/rna.chr4.subset.SJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/outrigger_output/index/mxe/events_negative_strand.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/outrigger_output/index/mxe/events_negative_strand.csv -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/outrigger_output/index/mxe/events_positive_strand.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/outrigger_output/index/mxe/events_positive_strand.csv -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/outrigger_output/index/se/events_negative_strand.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/outrigger_output/index/se/events_negative_strand.csv -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/outrigger_output/index/se/events_positive_strand.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/outrigger_output/index/se/events_positive_strand.csv -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/psi/mutually_exclusive_exon_junctions_psi.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/psi/mutually_exclusive_exon_junctions_psi.csv -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/psi/skipped_exon_junctions_psi.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/psi/skipped_exon_junctions_psi.csv -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/unprocessed/true_splice_junctions.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/unprocessed/true_splice_junctions.csv -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/validate_negative_control/chromsizes: -------------------------------------------------------------------------------- 1 | simulated 1000 2 | -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/validate_negative_control/exon2_downstream_splice_sites.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/validate_negative_control/exon2_downstream_splice_sites.csv -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/validate_negative_control/exon2_upstream_splice_sites.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/validate_negative_control/exon2_upstream_splice_sites.csv -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/validate_negative_control/genome.docx: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/validate_negative_control/genome.docx -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/validate_negative_control/genome.fasta: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/validate_negative_control/genome.fasta -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/validate_negative_control/genome.fasta.fai: -------------------------------------------------------------------------------- 1 | simulated 1000 11 60 61 2 | -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/mxe/events.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/mxe/events.csv -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/mxe/exon1.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/mxe/exon1.bed -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/mxe/exon2.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/mxe/exon2.bed -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/mxe/exon3.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/mxe/exon3.bed -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/mxe/exon4.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/mxe/exon4.bed -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/mxe/splice_sites.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/mxe/splice_sites.csv -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/mxe/validated/events.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/mxe/validated/events.csv -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/se/events.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/se/events.csv -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/se/exon1.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/se/exon1.bed -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/se/exon2.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/se/exon2.bed -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/se/exon3.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/se/exon3.bed -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/se/splice_sites.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/se/splice_sites.csv -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/se/validated/events.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/validate_negative_control/outrigger_output/index/se/validated/events.csv -------------------------------------------------------------------------------- /outrigger/tests/data/simulated/validate_negative_control/~$genome.docx: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/simulated/validate_negative_control/~$genome.docx -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/intermediate/adjacent_junctions_single_exon.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/intermediate/adjacent_junctions_single_exon.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/intermediate/index/star/splice_junctions_ignore_multimappingFalse.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/intermediate/index/star/splice_junctions_ignore_multimappingFalse.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/intermediate/index/star/splice_junctions_ignore_multimappingTrue.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/intermediate/index/star/splice_junctions_ignore_multimappingTrue.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/intermediate/junction_metadata.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/intermediate/junction_metadata.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/intermediate/junctions_genome_adjacent_downstream.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/intermediate/junctions_genome_adjacent_downstream.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/intermediate/junctions_genome_adjacent_to_exon_downstream.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/intermediate/junctions_genome_adjacent_to_exon_downstream.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/intermediate/junctions_genome_adjacent_to_exon_upstream.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/intermediate/junctions_genome_adjacent_to_exon_upstream.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/intermediate/junctions_genome_adjacent_upstream.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/intermediate/junctions_genome_adjacent_upstream.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/intermediate/neighboring_exons.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/intermediate/neighboring_exons.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/intermediate/psi/mxe/summary.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/intermediate/psi/mxe/summary.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/intermediate/psi/mxe_event_df.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/intermediate/psi/mxe_event_df.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/intermediate/psi/se/summary.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/intermediate/psi/se/summary.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/intermediate/psi/se_event_df.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/intermediate/psi/se_event_df.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/intermediate/psi/splice_junction_reads.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/intermediate/psi/splice_junction_reads.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/intermediate/single_junction_exon_triple.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/intermediate/single_junction_exon_triple.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/index/exon_direction_junction.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/index/exon_direction_junction.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/index/gtf/gencode.vM10.annotation.subset.gtf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/index/gtf/gencode.vM10.annotation.subset.gtf -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/index/gtf/gencode.vM10.annotation.subset.gtf.db: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/index/gtf/gencode.vM10.annotation.subset.gtf.db -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/index/gtf/novel_exons.gtf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/index/gtf/novel_exons.gtf -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/index/mxe/event.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/index/mxe/event.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/index/mxe/events.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/index/mxe/events.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/index/mxe/exon1.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/index/mxe/exon1.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/index/mxe/exon2.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/index/mxe/exon2.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/index/mxe/exon3.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/index/mxe/exon3.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/index/mxe/exon4.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/index/mxe/exon4.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/index/mxe/intron.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/index/mxe/intron.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/index/mxe/splice_sites.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/index/mxe/splice_sites.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/index/mxe/validated/events.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/index/mxe/validated/events.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/index/se/event.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/index/se/event.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/index/se/events.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/index/se/events.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/index/se/exon1.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/index/se/exon1.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/index/se/exon2.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/index/se/exon2.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/index/se/exon3.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/index/se/exon3.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/index/se/intron.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/index/se/intron.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/index/se/splice_sites.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/index/se/splice_sites.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/index/se/validated/events.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/index/se/validated/events.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/junctions/metadata.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/junctions/metadata.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/junctions/reads.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/junctions/reads.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/psi/mxe/psi.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/psi/mxe/psi.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/psi/mxe/summary.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/psi/mxe/summary.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/psi/outrigger_psi.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/psi/outrigger_psi.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/psi/outrigger_summary.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/psi/outrigger_summary.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/psi/se/psi.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/psi/se/psi.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output/psi/se/summary.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output/psi/se/summary.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/index/exon_direction_junction.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/index/exon_direction_junction.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/index/gtf/gencode.vM10.annotation.subset.gtf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/index/gtf/gencode.vM10.annotation.subset.gtf -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/index/gtf/gencode.vM10.annotation.subset.gtf.db: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/index/gtf/gencode.vM10.annotation.subset.gtf.db -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/index/gtf/novel_exons.gtf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/index/gtf/novel_exons.gtf -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/index/mxe/event.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/index/mxe/event.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/index/mxe/events.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/index/mxe/events.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/index/mxe/exon1.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/index/mxe/exon1.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/index/mxe/exon2.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/index/mxe/exon2.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/index/mxe/exon3.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/index/mxe/exon3.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/index/mxe/exon4.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/index/mxe/exon4.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/index/mxe/intron.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/index/mxe/intron.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/index/se/event.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/index/se/event.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/index/se/events.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/index/se/events.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/index/se/exon1.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/index/se/exon1.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/index/se/exon2.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/index/se/exon2.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/index/se/exon3.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/index/se/exon3.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/index/se/intron.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/index/se/intron.bed -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/junctions/metadata.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/junctions/metadata.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/junctions/reads.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/junctions/reads.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/psi/mxe/psi.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/psi/mxe/psi.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/psi/mxe/summary.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/psi/mxe/summary.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/psi/outrigger_psi.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/psi/outrigger_psi.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/psi/outrigger_summary.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/psi/outrigger_summary.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/psi/se/psi.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/psi/se/psi.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/outrigger_output_bam/psi/se/summary.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/outrigger_output_bam/psi/se/summary.csv -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/CAV_LP_Ipsi_tdTpos_cell_igv_load.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/CAV_LP_Ipsi_tdTpos_cell_igv_load.txt -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/CAV_LP_Ipsi_tdTpos_cell_igv_session.xml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/CAV_LP_Ipsi_tdTpos_cell_igv_session.xml -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/gtf/gencode.vM10.annotation.snap25.myl6.gtf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/gtf/gencode.vM10.annotation.snap25.myl6.gtf -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/gtf/gencode.vM10.annotation.snap25.myl6.gtf.db: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/gtf/gencode.vM10.annotation.snap25.myl6.gtf.db -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/gtf/gencode.vM10.annotation.snap25.myl6.gtf.db.bak: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/gtf/gencode.vM10.annotation.snap25.myl6.gtf.db.bak -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/gtf/gencode.vM10.annotation.subset.gtf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/gtf/gencode.vM10.annotation.subset.gtf -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/gtf/gencode.vM10.annotation.subset.gtf.db: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/gtf/gencode.vM10.annotation.subset.gtf.db -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/gtf/gencode.vM10.annotation.subset.with.novel.gtf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/gtf/gencode.vM10.annotation.subset.with.novel.gtf -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/gtf/gencode.vM10.annotation.subset.with.novel.gtf.db: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/gtf/gencode.vM10.annotation.subset.with.novel.gtf.db -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/samtools_filter_subset.sh: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/samtools_filter_subset.sh -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_1-SRR2140356-GSM1840944_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_1-SRR2140356-GSM1840944_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_10-SRR2140365-GSM1840953_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_10-SRR2140365-GSM1840953_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_11-SRR2140366-GSM1840954_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_11-SRR2140366-GSM1840954_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_12-SRR2140367-GSM1840955_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_12-SRR2140367-GSM1840955_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_13-SRR2140368-GSM1840956_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_13-SRR2140368-GSM1840956_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_14-SRR2140369-GSM1840957_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_14-SRR2140369-GSM1840957_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_15-SRR2140370-GSM1840958_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_15-SRR2140370-GSM1840958_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_16-SRR2140371-GSM1840959_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_16-SRR2140371-GSM1840959_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_17-SRR2140372-GSM1840960_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_17-SRR2140372-GSM1840960_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_18-SRR2140373-GSM1840961_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_18-SRR2140373-GSM1840961_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_19-SRR2140374-GSM1840962_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_19-SRR2140374-GSM1840962_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_2-SRR2140357-GSM1840945_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_2-SRR2140357-GSM1840945_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_20-SRR2140375-GSM1840963_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_20-SRR2140375-GSM1840963_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_21-SRR2140376-GSM1840964_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_21-SRR2140376-GSM1840964_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_22-SRR2140377-GSM1840965_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_22-SRR2140377-GSM1840965_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_23-SRR2140378-GSM1840966_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_23-SRR2140378-GSM1840966_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_24-SRR2140379-GSM1840967_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_24-SRR2140379-GSM1840967_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_25-SRR2140380-GSM1840968_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_25-SRR2140380-GSM1840968_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_26-SRR2140381-GSM1840969_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_26-SRR2140381-GSM1840969_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_27-SRR2140382-GSM1840970_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_27-SRR2140382-GSM1840970_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_28-SRR2140383-GSM1840971_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_28-SRR2140383-GSM1840971_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_29-SRR2140384-GSM1840972_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_29-SRR2140384-GSM1840972_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_3-SRR2140358-GSM1840946_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_3-SRR2140358-GSM1840946_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_30-SRR2140385-GSM1840973_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_30-SRR2140385-GSM1840973_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_31-SRR2140386-GSM1840974_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_31-SRR2140386-GSM1840974_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_32-SRR2140387-GSM1840975_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_32-SRR2140387-GSM1840975_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_33-SRR2140388-GSM1840976_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_33-SRR2140388-GSM1840976_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_34-SRR2140389-GSM1840977_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_34-SRR2140389-GSM1840977_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_35-SRR2140390-GSM1840978_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_35-SRR2140390-GSM1840978_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_36-SRR2140391-GSM1840979_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/CAV_LP_Ipsi_tdTpos_cell_36-SRR2140391-GSM1840979_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_CTX_10pg_1-SRR2140404-GSM1840992_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_CTX_10pg_1-SRR2140404-GSM1840992_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_CTX_10pg_2-SRR2140405-GSM1840993_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_CTX_10pg_2-SRR2140405-GSM1840993_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_CTX_10pg_3-SRR2140406-GSM1840994_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_CTX_10pg_3-SRR2140406-GSM1840994_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_CTX_10pg_4-SRR2140407-GSM1840995_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_CTX_10pg_4-SRR2140407-GSM1840995_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_CTX_10pg_5-SRR2140408-GSM1840996_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_CTX_10pg_5-SRR2140408-GSM1840996_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_CTX_10pg_6-SRR2140409-GSM1840997_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_CTX_10pg_6-SRR2140409-GSM1840997_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_CTX_250ng_1-SRR2140410-GSM1840998_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_CTX_250ng_1-SRR2140410-GSM1840998_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_CTX_250ng_2-SRR2140411-GSM1840999_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_CTX_250ng_2-SRR2140411-GSM1840999_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_1-SRR2139859-GSM1840447_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_1-SRR2139859-GSM1840447_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_10-SRR2139868-GSM1840456_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_10-SRR2139868-GSM1840456_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_11-SRR2139869-GSM1840457_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_11-SRR2139869-GSM1840457_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_12-SRR2139870-GSM1840458_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_12-SRR2139870-GSM1840458_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_13-SRR2139871-GSM1840459_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_13-SRR2139871-GSM1840459_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_14-SRR2139872-GSM1840460_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_14-SRR2139872-GSM1840460_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_15-SRR2139873-GSM1840461_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_15-SRR2139873-GSM1840461_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_16-SRR2139874-GSM1840462_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_16-SRR2139874-GSM1840462_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_17-SRR2139875-GSM1840463_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_17-SRR2139875-GSM1840463_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_18-SRR2139876-GSM1840464_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_18-SRR2139876-GSM1840464_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_19-SRR2139877-GSM1840465_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_19-SRR2139877-GSM1840465_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_2-SRR2139860-GSM1840448_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_2-SRR2139860-GSM1840448_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_20-SRR2139878-GSM1840466_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_20-SRR2139878-GSM1840466_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_21-SRR2139879-GSM1840467_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_21-SRR2139879-GSM1840467_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_22-SRR2139880-GSM1840468_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_22-SRR2139880-GSM1840468_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_23-SRR2139881-GSM1840469_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_23-SRR2139881-GSM1840469_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_3-SRR2139861-GSM1840449_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_3-SRR2139861-GSM1840449_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_4-SRR2139862-GSM1840450_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_4-SRR2139862-GSM1840450_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_5-SRR2139863-GSM1840451_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_5-SRR2139863-GSM1840451_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_6-SRR2139864-GSM1840452_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_6-SRR2139864-GSM1840452_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_7-SRR2139865-GSM1840453_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_7-SRR2139865-GSM1840453_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_8-SRR2139866-GSM1840454_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_8-SRR2139866-GSM1840454_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_9-SRR2139867-GSM1840455_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTnegative_cell_9-SRR2139867-GSM1840455_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_1-SRR2139669-GSM1840257_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_1-SRR2139669-GSM1840257_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_10-SRR2139678-GSM1840266_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_10-SRR2139678-GSM1840266_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_11-SRR2139679-GSM1840267_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_11-SRR2139679-GSM1840267_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_12-SRR2139680-GSM1840268_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_12-SRR2139680-GSM1840268_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_13-SRR2139681-GSM1840269_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_13-SRR2139681-GSM1840269_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_14-SRR2139682-GSM1840270_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_14-SRR2139682-GSM1840270_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_15-SRR2139683-GSM1840271_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_15-SRR2139683-GSM1840271_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_16-SRR2139684-GSM1840272_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_16-SRR2139684-GSM1840272_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_17-SRR2139685-GSM1840273_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_17-SRR2139685-GSM1840273_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_18-SRR2139686-GSM1840274_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_18-SRR2139686-GSM1840274_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_19-SRR2139687-GSM1840275_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_19-SRR2139687-GSM1840275_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_2-SRR2139670-GSM1840258_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_2-SRR2139670-GSM1840258_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_20-SRR2139688-GSM1840276_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_20-SRR2139688-GSM1840276_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_21-SRR2139689-GSM1840277_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_21-SRR2139689-GSM1840277_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_22-SRR2139690-GSM1840278_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_22-SRR2139690-GSM1840278_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_23-SRR2139691-GSM1840279_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_23-SRR2139691-GSM1840279_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_24-SRR2139692-GSM1840280_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_24-SRR2139692-GSM1840280_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_25-SRR2139693-GSM1840281_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_25-SRR2139693-GSM1840281_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_26-SRR2139694-GSM1840282_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_26-SRR2139694-GSM1840282_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_27-SRR2139695-GSM1840283_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_27-SRR2139695-GSM1840283_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_28-SRR2139696-GSM1840284_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_28-SRR2139696-GSM1840284_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_29-SRR2139697-GSM1840285_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_29-SRR2139697-GSM1840285_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_3-SRR2139671-GSM1840259_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_3-SRR2139671-GSM1840259_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_30-SRR2139698-GSM1840286_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_30-SRR2139698-GSM1840286_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_31-SRR2139699-GSM1840287_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_31-SRR2139699-GSM1840287_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_32-SRR2139700-GSM1840288_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_32-SRR2139700-GSM1840288_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_33-SRR2139701-GSM1840289_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_33-SRR2139701-GSM1840289_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_34-SRR2139702-GSM1840290_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_34-SRR2139702-GSM1840290_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_35-SRR2139703-GSM1840291_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_35-SRR2139703-GSM1840291_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_36-SRR2139704-GSM1840292_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_36-SRR2139704-GSM1840292_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_37-SRR2139705-GSM1840293_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_37-SRR2139705-GSM1840293_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_38-SRR2139706-GSM1840294_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_38-SRR2139706-GSM1840294_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_39-SRR2139707-GSM1840295_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_39-SRR2139707-GSM1840295_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_4-SRR2139672-GSM1840260_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_4-SRR2139672-GSM1840260_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_40-SRR2139708-GSM1840296_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_40-SRR2139708-GSM1840296_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_41-SRR2139709-GSM1840297_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_41-SRR2139709-GSM1840297_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_42-SRR2139710-GSM1840298_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_42-SRR2139710-GSM1840298_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_43-SRR2139711-GSM1840299_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_43-SRR2139711-GSM1840299_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_44-SRR2139712-GSM1840300_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_44-SRR2139712-GSM1840300_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_45-SRR2139713-GSM1840301_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_45-SRR2139713-GSM1840301_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_46-SRR2139714-GSM1840302_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_46-SRR2139714-GSM1840302_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_47-SRR2139715-GSM1840303_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_47-SRR2139715-GSM1840303_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_48-SRR2139716-GSM1840304_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_48-SRR2139716-GSM1840304_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_49-SRR2139717-GSM1840305_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_49-SRR2139717-GSM1840305_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_5-SRR2139673-GSM1840261_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_5-SRR2139673-GSM1840261_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_50-SRR2139718-GSM1840306_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_50-SRR2139718-GSM1840306_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_51-SRR2139719-GSM1840307_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_51-SRR2139719-GSM1840307_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_52-SRR2139720-GSM1840308_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_52-SRR2139720-GSM1840308_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_53-SRR2139721-GSM1840309_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_53-SRR2139721-GSM1840309_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_54-SRR2139722-GSM1840310_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_54-SRR2139722-GSM1840310_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_55-SRR2139723-GSM1840311_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_55-SRR2139723-GSM1840311_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_56-SRR2139724-GSM1840312_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_56-SRR2139724-GSM1840312_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_57-SRR2139725-GSM1840313_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_57-SRR2139725-GSM1840313_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_58-SRR2139726-GSM1840314_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_58-SRR2139726-GSM1840314_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_59-SRR2139727-GSM1840315_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_59-SRR2139727-GSM1840315_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_6-SRR2139674-GSM1840262_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_6-SRR2139674-GSM1840262_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_60-SRR2139728-GSM1840316_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_60-SRR2139728-GSM1840316_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_61-SRR2139729-GSM1840317_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_61-SRR2139729-GSM1840317_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_62-SRR2139730-GSM1840318_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_62-SRR2139730-GSM1840318_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_63-SRR2139731-GSM1840319_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_63-SRR2139731-GSM1840319_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_64-SRR2139732-GSM1840320_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_64-SRR2139732-GSM1840320_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_65-SRR2139733-GSM1840321_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_65-SRR2139733-GSM1840321_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_66-SRR2139734-GSM1840322_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_66-SRR2139734-GSM1840322_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_67-SRR2139735-GSM1840323_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_67-SRR2139735-GSM1840323_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_68-SRR2139736-GSM1840324_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_68-SRR2139736-GSM1840324_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_69-SRR2139737-GSM1840325_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_69-SRR2139737-GSM1840325_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_7-SRR2139675-GSM1840263_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_7-SRR2139675-GSM1840263_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_70-SRR2139738-GSM1840326_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_70-SRR2139738-GSM1840326_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_71-SRR2139739-GSM1840327_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_71-SRR2139739-GSM1840327_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_72-SRR2139740-GSM1840328_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_72-SRR2139740-GSM1840328_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_73-SRR2139741-GSM1840329_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_73-SRR2139741-GSM1840329_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_74-SRR2139742-GSM1840330_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_74-SRR2139742-GSM1840330_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_75-SRR2139743-GSM1840331_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_75-SRR2139743-GSM1840331_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_76-SRR2139744-GSM1840332_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_76-SRR2139744-GSM1840332_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_77-SRR2139745-GSM1840333_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_77-SRR2139745-GSM1840333_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_78-SRR2139746-GSM1840334_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_78-SRR2139746-GSM1840334_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_79-SRR2139747-GSM1840335_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_79-SRR2139747-GSM1840335_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_8-SRR2139676-GSM1840264_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_8-SRR2139676-GSM1840264_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_80-SRR2139748-GSM1840336_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_80-SRR2139748-GSM1840336_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_81-SRR2139749-GSM1840337_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_81-SRR2139749-GSM1840337_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_82-SRR2139750-GSM1840338_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_82-SRR2139750-GSM1840338_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_83-SRR2139751-GSM1840339_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_83-SRR2139751-GSM1840339_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_84-SRR2139752-GSM1840340_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_84-SRR2139752-GSM1840340_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_85-SRR2139753-GSM1840341_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_85-SRR2139753-GSM1840341_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_86-SRR2139754-GSM1840342_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_86-SRR2139754-GSM1840342_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_87-SRR2139755-GSM1840343_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_87-SRR2139755-GSM1840343_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_88-SRR2139756-GSM1840344_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_88-SRR2139756-GSM1840344_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_89-SRR2139757-GSM1840345_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_89-SRR2139757-GSM1840345_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_9-SRR2139677-GSM1840265_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_9-SRR2139677-GSM1840265_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_90-SRR2139758-GSM1840346_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_90-SRR2139758-GSM1840346_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_91-SRR2139759-GSM1840347_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_91-SRR2139759-GSM1840347_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_92-SRR2139760-GSM1840348_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_92-SRR2139760-GSM1840348_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_93-SRR2139761-GSM1840349_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_93-SRR2139761-GSM1840349_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_94-SRR2139762-GSM1840350_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_94-SRR2139762-GSM1840350_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_95-SRR2139763-GSM1840351_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_95-SRR2139763-GSM1840351_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_96-SRR2139764-GSM1840352_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_96-SRR2139764-GSM1840352_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_97-SRR2139765-GSM1840353_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_97-SRR2139765-GSM1840353_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_98-SRR2139766-GSM1840354_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_98-SRR2139766-GSM1840354_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_99-SRR2139767-GSM1840355_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/tasic2016/unprocessed/sj_out_tab/Rbp4_tdTpositive_cell_99-SRR2139767-GSM1840355_R1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/intermediate/index/adjacencies/adjacent_junctions_single_exon.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/intermediate/index/adjacencies/adjacent_junctions_single_exon.csv -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/intermediate/index/adjacencies/junctions_genome_adjacent_to_exon_downstream.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/intermediate/index/adjacencies/junctions_genome_adjacent_to_exon_downstream.csv -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/intermediate/index/adjacencies/junctions_genome_adjacent_to_exon_upstream.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/intermediate/index/adjacencies/junctions_genome_adjacent_to_exon_upstream.csv -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/intermediate/index/adjacencies/neighboring_exons.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/intermediate/index/adjacencies/neighboring_exons.csv -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/intermediate/index/adjacencies/single_junction_exon_triple.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/intermediate/index/adjacencies/single_junction_exon_triple.csv -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/intermediate/io/star/junction_metadata.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/intermediate/io/star/junction_metadata.csv -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/intermediate/io/star/splice_junctions_multimappingFalse.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/intermediate/io/star/splice_junctions_multimappingFalse.csv -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/intermediate/io/star/splice_junctions_multimappingTrue.csv: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/intermediate/io/star/splice_junctions_multimappingTrue.csv -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/gtf/gencode.vM2.annotation.fgfr2.gtf: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/gtf/gencode.vM2.annotation.fgfr2.gtf -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/gtf/gencode.vM2.annotation.fgfr2.gtf.db: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/gtf/gencode.vM2.annotation.fgfr2.gtf.db -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033853_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033853_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033854_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033854_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033855_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033855_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033856_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033856_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033857_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033857_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033858_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033858_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033859_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033859_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033860_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033860_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033861_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033861_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033862_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033862_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033863_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033863_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033864_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033864_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033865_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033865_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033866_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033867_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033867_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033868_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033868_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033869_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033869_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033870_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033870_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033871_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033871_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033872_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033872_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033873_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033874_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033874_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033875_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033875_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033876_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033876_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033877_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033877_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033878_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033878_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033879_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033879_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033880_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033880_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033881_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033881_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033882_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033882_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033883_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033883_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033884_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033884_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033885_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033885_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033886_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033886_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033887_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033887_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033888_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033888_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033889_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033889_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033890_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033890_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033891_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033891_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033892_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033892_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033893_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033893_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033894_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033894_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033895_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033895_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033896_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033896_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033897_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033897_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033898_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033899_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033900_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033900_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033901_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033901_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033902_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033902_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033903_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033903_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033904_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033905_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033905_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033906_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033906_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033907_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033907_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033908_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033909_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033909_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033910_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033910_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033911_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033911_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033912_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033912_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033913_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033913_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033914_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033914_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033915_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033915_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033916_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033916_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033917_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033917_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033918_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033918_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033919_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033919_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033920_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033920_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033921_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033921_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033922_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033922_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033923_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033923_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033924_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033924_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033925_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033925_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033926_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033926_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033927_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033927_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033928_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033928_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033929_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033929_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033930_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033930_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033931_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033931_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033932_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033932_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033933_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033933_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033934_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033934_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033935_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033935_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033936_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033936_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033937_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033937_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033938_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033938_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033939_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033939_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033940_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033940_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033941_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033941_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033942_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033942_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033943_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033943_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033944_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033944_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033945_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033945_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033946_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033946_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033947_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033947_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033948_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033948_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033949_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033949_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033950_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033950_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033951_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033951_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033952_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033952_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033953_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033953_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033954_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033954_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033955_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033955_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033956_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033956_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033957_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033957_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033958_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033958_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033959_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033959_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033960_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033960_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033961_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033961_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033962_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033962_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033963_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033963_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033964_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033964_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033965_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033965_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033966_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033966_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033967_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033967_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033968_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033968_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033969_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033969_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033970_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033970_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033971_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033971_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033972_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033972_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033973_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033973_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033974_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033974_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033975_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033975_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033976_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033976_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033977_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033977_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033978_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033979_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033979_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033980_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033980_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033981_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033981_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033982_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033982_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033983_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033983_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033984_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033984_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033985_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033985_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033986_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033986_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033987_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033988_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033988_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033989_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033990_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033990_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033991_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033991_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033992_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033993_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033993_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033994_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033994_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033995_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033995_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033996_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033997_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033997_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033998_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033998_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033999_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1033999_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034000_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034001_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034002_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034003_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034004_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034005_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034005_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034006_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034006_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034007_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034007_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034008_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034008_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034009_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034009_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034010_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034010_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034011_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034011_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034012_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034012_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034013_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034013_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034014_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034014_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034015_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034015_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034016_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034016_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034017_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034017_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034018_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034019_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034019_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034020_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034020_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034021_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034021_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034022_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034022_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034023_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034023_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034024_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034024_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034025_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034026_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034026_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034027_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034027_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034028_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034028_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034029_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034029_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034030_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034030_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034031_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034032_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034032_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034033_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034033_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034034_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034034_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034035_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034035_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034036_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034036_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034037_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034037_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034038_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034038_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034039_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034039_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034040_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034040_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034041_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034041_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034042_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034042_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034043_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034043_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034044_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034044_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034045_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034045_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034046_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034046_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034047_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034047_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034048_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034048_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034049_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034049_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034050_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034050_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034051_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034051_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034052_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034052_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034053_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/data/treutlein2014/unprocessed/sj_out_tab/SRR1034053_1.polyATrim.adapterTrim.rmRep.bamSJ.out.tab -------------------------------------------------------------------------------- /outrigger/tests/hmmscan_out.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/hmmscan_out.txt -------------------------------------------------------------------------------- /outrigger/tests/index/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/index/test_adjacencies.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/index/test_adjacencies.py -------------------------------------------------------------------------------- /outrigger/tests/index/test_events.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/index/test_events.py -------------------------------------------------------------------------------- /outrigger/tests/index/test_region.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/index/test_region.py -------------------------------------------------------------------------------- /outrigger/tests/io/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/io/test_bam.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/io/test_bam.py -------------------------------------------------------------------------------- /outrigger/tests/io/test_gtf.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/io/test_gtf.py -------------------------------------------------------------------------------- /outrigger/tests/io/test_star.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/io/test_star.py -------------------------------------------------------------------------------- /outrigger/tests/psi/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/psi/test_compute.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/psi/test_compute.py -------------------------------------------------------------------------------- /outrigger/tests/test.bed: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/test.bed -------------------------------------------------------------------------------- /outrigger/tests/test.chromsizes: -------------------------------------------------------------------------------- 1 | chr1 600 2 | -------------------------------------------------------------------------------- /outrigger/tests/test.fasta: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/test.fasta -------------------------------------------------------------------------------- /outrigger/tests/test.fasta.fai: -------------------------------------------------------------------------------- 1 | chr1 600 6 60 61 2 | -------------------------------------------------------------------------------- /outrigger/tests/test_commandline.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/test_commandline.py -------------------------------------------------------------------------------- /outrigger/tests/validate/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/tests/validate/test_check_splice_sites.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/tests/validate/test_check_splice_sites.py -------------------------------------------------------------------------------- /outrigger/util.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/util.py -------------------------------------------------------------------------------- /outrigger/validate/__init__.py: -------------------------------------------------------------------------------- 1 | -------------------------------------------------------------------------------- /outrigger/validate/check_splice_sites.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/outrigger/validate/check_splice_sites.py -------------------------------------------------------------------------------- /requirements.txt: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/requirements.txt -------------------------------------------------------------------------------- /setup.cfg: -------------------------------------------------------------------------------- 1 | [wheel] 2 | universal = 1 3 | -------------------------------------------------------------------------------- /setup.py: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/setup.py -------------------------------------------------------------------------------- /testing/environment_no_python.yml: -------------------------------------------------------------------------------- https://raw.githubusercontent.com/YeoLab/outrigger/HEAD/testing/environment_no_python.yml --------------------------------------------------------------------------------