Description

Select only sequences that match the filtering condition

Input

name:type
description
pattern

meta:map

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

sequences:file

FASTQ/FASTA file

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

filter_list:file

BED file or a text file with a list of sequence names

*.{bed,lst}

Output

name:type
description
pattern

sequences

meta:file

FASTQ/FASTA file

*.{fq.gz,fa.gz}

*.gz:file

FASTQ/FASTA file

*.{fq.gz,fa.gz}

versions

versions.yml:file

File containing software versions

versions.yml

Tools

seqtk
MIT

Seqtk is a fast and lightweight tool for processing sequences in the FASTA or FASTQ format