Description

match up paired-end reads from two fastq files

Input

name:type
description
pattern

meta:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end

]

reads:file

List of input paired-end FastQ files.

Output

name:type
description
pattern

reads

meta:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end

]

*.paired.fastq.gz:file

Paired fastq reads

*.paired.fastq.gz

unpaired_reads

meta:map

Groovy Map containing sample information e.g. [ id:‘test’, single_end

]

*.unpaired.fastq.gz:file

Unpaired reads (optional)

*.unpaired.fastq.gz

versions

versions.yml:file

File containing software versions

versions.yml

Tools

seqkit
MIT

Cross-platform and ultrafast toolkit for FASTA/Q file manipulation, written by Wei Shen.