├── Mandalorion_10_Determine_Alternative_Splicing.py ├── Mandalorion_11_Define_and_Quantify_Isoforms.py ├── Mandalorion_12_Create_Consensi.py ├── Mandalorion_14_Align_Consensi_With_Gmap.py ├── Mandalorion_1_Clean_Read_and_File_Names.py ├── Mandalorion_2_Demultiplex.py ├── Mandalorion_3_Remove_ISPCR_Sequences.py ├── Mandalorion_4_Align_Reads_With_Gmap.py ├── Mandalorion_5_TESS.py ├── Mandalorion_6.5_Refine_SS.py ├── Mandalorion_6_SS.py ├── Mandalorion_7_Gene_Expression.py ├── Mandalorion_8_Combined_TESS_SS.py ├── Mandalorion_9_Match_TESS_SS_Combinations_to_genes.py ├── Mandalorion_define_and_quantify_isoforms.py ├── Mandalorion_demultiplex_and_align.py ├── Mandalorion_just_align.py ├── NUC.4.4.mat ├── README.md ├── content_file_example └── sample_index.fasta /Mandalorion_10_Determine_Alternative_Splicing.py: -------------------------------------------------------------------------------- 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