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Trim Galore

For removing contaminant adapters and read quality trimming
Internally based on tools Cutadapt and FastQC


Install "Trim Galore"

(a) using a conda environment
conda install -c bioconda trim-galore

(b) direct install from GitHub
# requires separate installation of Cutadapt and FastQC


Example

# adapter removal and read quality trimming of paired read samples
trim_galore --paired SAMPLE_R1.fastq.gz SAMPLE_R2.fastq.gz