Description

Merging paired-end reads and removing sequencing adapters.

Input

name:type
description
pattern

meta:map

Groovy Map containing sample information e.g. [ id:'test', single_end:false ]

reads:file

List of input FastQ files of size 2; i.e., paired-end data.

*.{fa,fasta,fastq,fq,fa.gz,fasta.gz,fastq.gz,fq.gz}

Output

name:type
description
pattern

merged_reads

meta:map

Groovy Map containing sample information e.g. [ id:'test', single_end:false ]

*.merged.fq.gz:file

fastq file merged reads

*.{fa,fasta,fastq,fq,fa.gz,fasta.gz,fastq.gz,fq.gz}

unstitched_read1

meta:map

Groovy Map containing sample information e.g. [ id:'test', single_end:false ]

*_1.fastq.gz:file

fastq file unstitched read 1

*.{fa,fasta,fastq,fq,fa.gz,fasta.gz,fastq.gz,fq.gz}

unstitched_read2

meta:map

Groovy Map containing sample information e.g. [ id:'test', single_end:false ]

*_2.fastq.gz:file

fastq file unstitched read 2

*.{fa,fasta,fastq,fq,fa.gz,fasta.gz,fastq.gz,fq.gz}

versions

versions.yml:file

File containing software versions

versions.yml

Tools

ngmerge
MIT

Merging paired-end reads and removing sequencing adapters.