Nextflow Registry | nf-core/seqkit/seq@0.0.0-0c7146d

nf-core/seqkit/seq @ 0.0.0-0c7146d

Transforms sequences (extract ID, filter by length, remove gaps, reverse complement...)

genomics fasta fastq transform filter gaps complement

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @GallVp

Maintainers: @GallVp

Transforms sequences (extract ID, filter by length, remove gaps, reverse complement...)

Add the following snippet to your workflow script to include this module.

include { SEQKIT_SEQ } from 'nf-core/seqkit/seq'

MIT License

Process

`Name`	`SEQKIT_SEQ`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`fastx` file	Input fasta/fastq file `*.{fsa,fas,fa,fasta,fastq,fq,fsa.gz,fas.gz,fa.gz,fasta.gz,fastq.gz,fq.gz}`

Output 2 channels

#1 fastx tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`${prefix}.*` file	Output fasta/fastq file `*.{fasta,fasta.gz,fastq,fastq.gz}`

#2 versions_seqkit tuple

`${task.process}` string	The name of the process
`seqkit` string	The name of the tool
`seqkit version \| sed 's/^.*v//'` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
seqkit	A cross-platform and ultrafast toolkit for FASTA/Q file manipulation	https://bioinf.shenwei.me/seqkit/

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 19:12:53 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fseqkit%2Fseq/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/seqkit/seq/blobs/sha256:7e36860e6d70c220b5082d8cee00d9a657561d42e7153259734a92717025f6f3
Size	2.8 KB
Checksum	sha256:7e36860e6d70c220b5082d8cee00d9a657561d42e7153259734a92717025f6f3
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 19:12:53 (UTC)		1	2.8 KB	-