- fq1=$1
- fq2=$2
- sampleID=$3
- outdir=$4
- mkdir -p ${outdir};
- mkdir -p ${outdir}/1.QC;
- fastp -i ${fq1} -o ${outdir}/1.QC/${sampleID}_trim_1.fq.gz -I ${fq2} -O ${outdir}/1.QC/${sampleID}_trim_2.fq.gz --html ${outdir}/1.QC/${sampleID}.fastp.html --json ${outdir}/1.QC/${sampleID}.fastp.json -l 5
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