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nlecouvr
nextflow
Commits
ea3b7832
Commit
ea3b7832
authored
Feb 16, 2022
by
nlecouvr
Browse files
Update Dam_ID_analysis.nf
parent
0a73bd21
Changes
1
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src/Dam_ID_analysis.nf
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ea3b7832
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@@ -9,6 +9,7 @@ include { index_fasta ; mapping_fastq } from "./nf_modules/bowtie2/main.nf" addP
include { index_bam ; sort_bam} from "./nf_modules/samtools/main.nf"
include { gatc_finder } from "./nf_modules/gatc_finder/main.nf"
params.fasta = "data/genome/*_G.fasta"
...
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@@ -30,14 +31,20 @@ channel
channel
.fromPath(params.bam)
.set{bam_file}
/*================================ workflow ================================*/
workflow {
gatc_finder(params.fasta)
fastp(fastq_files)
index_fasta(fasta_files)
mapping_fastq(index_fasta.out.index.collect(),
fastp.out.fastq)
sort_bam(bam_file)
index_bam(sort_bam.out.bam)
}
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