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

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

Multiple Sequence Alignment using Graph Clustering

MSA alignment genomics graph

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @lrauschning

Multiple Sequence Alignment using Graph Clustering

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

include { MAGUS_ALIGN } from 'nf-core/magus/align'

MIT License

Process

`Name`	`MAGUS_ALIGN`

Input 3 channels

#1 tuple

`meta` map	Groovy Map containing the fasta meta information e.g. `[ id:'test', single_end:false ]`
`fasta` file	Input sequences in FASTA format. `*.{fa,fna,fasta}`

#2 tuple

`meta2` map	Groovy Map containing sample information for the specified guide tree (if supplied) e.g. `[ id:'test', single_end:false ]`
`tree` file	Optional path to a file containing a guide tree in newick format to use as input. If empty, or overwritten by passing `-t [fasttree\|fasttree-noml\|clustal\|parttree]`, MAGUS will construct its own guide tree. If empty, `fasttree` is used as a default. `*.{dnd,tree}`

`compress` boolean	Flag representing whether the output MSA should be compressed. Set to true to enable/false to disable compression. Compression is done using pigz, and is multithreaded.

Output 3 channels

#1 alignment tuple

`meta` map	Groovy Map containing sample meta information. e.g. `[ id:'test', single_end:false ]`
`*.aln{.gz,}` file	File containing the output alignment, in FASTA format containing gaps. The sequences may be in a different order than in the input FASTA. The output file may or may not be gzipped, depending on the value supplied to `compress`. `*.aln{.gz,}`

#2 versions_pigz tuple

`${task.process}` string	The name of the process
`pigz` string	The name of the tool
`pigz --version 2>&1 \| sed "s/^.pigz[[:space:]]//"` eval	The expression to obtain the version of the tool

#3 versions_magus tuple

`${task.process}` string	The name of the process
`magus` string	The name of the tool
`magus --version` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
magus	Multiple Sequence Alignment using Graph Clustering	https://github.com/vlasmirnov/MAGUS

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:53:11 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fmagus%2Falign/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/magus/align/blobs/sha256:d4cf190c72a728971813873ecef1c48b7c77eda6f6b4699d4fd3d0320f754386
Size	3.1 KB
Checksum	sha256:d4cf190c72a728971813873ecef1c48b7c77eda6f6b4699d4fd3d0320f754386
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:53:11 (UTC)		1	3.1 KB	-