FelixKrueger / Trimgalore
Licence: gpl-3.0
A wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data
Stars: ✭ 246
Programming Languages
perl
6916 projects
Trim Galore
Trim Galore is a wrapper around Cutadapt and FastQC to consistently apply adapter and quality trimming to FastQ files, with extra functionality for RRBS data.
Installation
Trim Galore is a a Perl wrapper around two tools: Cutadapt and FastQC. To use, ensure that these two pieces of software are available and copy the trim_galore
script to a location available on the PATH
.
For example:
# Check that cutadapt is installed
cutadapt --version
# Check that FastQC is installed
fastqc -v
# Install Trim Galore
curl -fsSL https://github.com/FelixKrueger/TrimGalore/archive/0.6.6.tar.gz -o trim_galore.tar.gz
tar xvzf trim_galore.tar.gz
# Run Trim Galore
~/TrimGalore-0.6.6/trim_galore
Documentation
For instructions on how to use Trim Galore, please see the User Guide.
Credits
Trim Galore was developed at The Babraham Institute by @FelixKrueger. You can find it's project page here: bioinformatics.babraham.ac.uk
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