Description

Common transformation operations on FASTA or FASTQ files.

Input

name:type
description
pattern

meta:map

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

fastx:file

A FASTQ or FASTA file

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

Output

name:type
description
pattern

fastx

meta:map

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

*.gz:file

FASTQ/FASTA file containing renamed sequences

*.{fastq.gz, fasta.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. The seqtk seq command enables common transformation operations on FASTA or FASTQ files.