Nextflow Registry | nf-core/vclust/align@0.0.0-0c7146d

nf-core/vclust/align @ 0.0.0-0c7146d

The align command performs pairwise sequence alignments of viral genomes and provides similarity measures like ANI and coverage (alignment fraction)

cluster virus filter contig scaffold phage

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @Joon-klaps

Maintainers: @Joon-klaps

The align command performs pairwise sequence alignments of viral genomes and provides similarity measures like ANI and coverage (alignment fraction)

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

include { VCLUST_ALIGN } from 'nf-core/vclust/align'

MIT License

Process

`Name`	`VCLUST_ALIGN`

Input 3 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`fasta` file	Input fasta file containing sequences needed for filtering `*.{fasta,fna,fa}`

#2 tuple

`meta2` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`filter` file	Input txt file containing sequences relationships for filtering (generated with vclust prefilter) `*.txt`

`save_alignment` boolean	Save the pairwise alignments to a blast-like file. `*.aln.tsv`

Output 4 channels

#1 aln tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*.aln.tsv` file	File similar to the BLASTn tabular output file, includes information on each local alignment between two genomes.

#2 ids tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*.ids.tsv` file	File containing sequence IDs and their number of parts `*.ids.tsv`

#3 tsv tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`${prefix}.tsv` file	Sorted TSV file `*.tsv`

#4 versions

`versions.yml` file	File containing software versions `versions.yml`

Tool	Description	Homepage
vclust	Fast and accurate tool for calculating ANI and clustering virus genomes and metagenomes.	https://afproject.org/vclust/

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 19:22:15 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fvclust%2Falign/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/vclust/align/blobs/sha256:ab422ebdcba82e331b97d6a0f37e638c14f49840a444aba73f1073a0adb40245
Size	3.2 KB
Checksum	sha256:ab422ebdcba82e331b97d6a0f37e638c14f49840a444aba73f1073a0adb40245
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 19:22:15 (UTC)		1	3.2 KB	-