├── .travis.yml ├── CHANGELOG.md ├── Docs ├── Images │ ├── Thumbs.db │ ├── adapters.png │ ├── adapters_fixed.png │ ├── fixed_quals.png │ ├── fixed_quals_per_sequence.png │ ├── logo.png │ ├── pigz_bench.png │ ├── poor_q_per_sequence.png │ └── poor_quals.png ├── RRBS_Guide.pdf └── Trim_Galore_User_Guide.md ├── LICENSE ├── README.md ├── test_files ├── 4_seqs_with_Ns.fastq.gz ├── clock_10K_R1.fastq.gz ├── clock_10K_R2.fastq.gz ├── colorspace_file.fastq ├── empty_file.fastq ├── illumina_100K.fastq.gz ├── illumina_100K.fastq.gz_trimming_report.txt ├── illumina_10K.fastq.gz ├── illumina_10K.fastq.gz_trimming_report.txt ├── illumina_10K_trimmed.fq.gz ├── nextera_100K.fastq.gz ├── nextera_100K.fastq.gz_trimming_report.txt ├── smallRNA_100K.fastq.gz ├── smallRNA_100K.fastq.gz_trimming_report.txt ├── smallRNA_100K_R1.fastq.gz_trimming_report.txt ├── smallRNA_100K_R2.fastq.gz ├── smallRNA_100K_R2.fastq.gz_trimming_report.txt └── truncated.fq.gz └── trim_galore /.travis.yml: 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