training/nf-training/script3.nf at master · mavi-sqr/training

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#!/usr/bin/env nextflow

* pipeline input parameters

params.reads = "$projectDir/data/ggal/gut_{1,2}.fq"

params.transcriptome_file = "$projectDir/data/ggal/transcriptome.fa"

params.multiqc = "$projectDir/multiqc"

params.outdir = "results"

log.info """\

R N A S E Q - N F P I P E L I N E

===================================

transcriptome: ${params.transcriptome_file}

reads : ${params.reads}

outdir : ${params.outdir}

"""

.stripIndent()

read_pairs_ch = Channel.fromFilePairs(params.reads)