Commit 712447cc authored by cbedet1's avatar cbedet1
Browse files

addition of Kallisto quantif

parent 852340ed
......@@ -6,6 +6,7 @@ log.info "bed file : ${params.bed}"
include { fastp } from "./nf_modules/fastp/main.nf"
include { fasta_from_bed } from "./nf_modules/bedtools/main.nf"
include { index_fasta; mapping_fastq } from './nf_modules/kallisto/main.nf'
params.fastq = "data/fastq/*_{1,2}.fastq"
......@@ -24,6 +25,9 @@ channel
workflow {
fastp(fastq_files)
fasta_from_bed(fasta_files, bed_files)
index_fasta(fasta_from_bed.out.fasta)
mapping_fastq(index_fasta.out.index.collect(), fastp.out.fastq) //.collect pour réutiliser l'index pour chaque fastq file
}
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