Quality control & raw data processing tools
Quality control & raw data processing tools
FastqMcf (ea-utils)
https://github.com/ExpressionAnalysis/ea-utils/blob/wiki/FastqMcf.md
- adapter removal and read quality trimming
- internally based on Cutadapt and FastQC
https://www.bioinformatics.babraham.ac.uk/projects/trim_galore/
FastQC
http://www.bioinformatics.babraham.ac.uk/projects/fastqc/
FASTX-Toolkit
http://hannonlab.cshl.edu/fastx_toolkit/
Usearch
http://www.drive5.com/usearch/manual/cmd_fastq_filter.html
Trimmomatic
http://www.usadellab.org/cms/?page=trimmomatic
Sickle