Nextflow Registry | nf-core/hmmer/eslalimask@0.0.0-6c4ed3a

nf-core/hmmer/eslalimask @ 0.0.0-6c4ed3a

Mask multiple sequence alignments

hmmer alignment mask

Latest version: 0.0.0-6c4ed3a

Total downloads: 10

Source: nf-core/modules

Authors: @erikrikarddaniel

Maintainers: @erikrikarddaniel

Mask multiple sequence alignments

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

include { HMMER_ESLALIMASK } from 'nf-core/hmmer/eslalimask'

MIT License

Process

`Name`	`HMMER_ESLALIMASK`

Input 2 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test' ]
`unmaskedaln` file	multiple sequence alignment, Stockholm or other formats `*`
`fmask_rf` boolean	Flag to output optional file with final mask of non-gap RF len
`fmask_all` boolean	Flag to output optional file with final mask of full aln len
`gmask_rf` boolean	Flag to output optional file gap-based 0/1 mask of non-gap RF len
`gmask_all` boolean	Flag to output optional file gap-based 0/1 mask of full aln len
`pmask_rf` boolean	Flag to output optional file with PP-based 0/1 mask of non-gap RF len
`pmask_all` boolean	Flag to output optional file with PP-based 0/1 mask of full aln len

`maskfile` file	mask file, see program documentation `*`

Output 8 channels

#1 fmask_rf

`*.fmask-rf.gz` file	File with final mask of non-gap RF len `*.fmask-rf.gz`

#2 gmask_rf

`*.gmask-rf.gz` file	File with gap-based 0/1 mask of non-gap RF len `*.gmask-rf.gz`

#3 pmask_rf

`*.pmask-rf.gz` file	File with PP-based 0/1 mask of non-gap RF len `*.pmask-rf.gz`

#4 versions

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

#5 fmask_all

`*.fmask-all.gz` file	File with final mask of full aln len `*.fmask-all.gz`

#6 gmask_all

`*.gmask-all.gz` file	File with gap-based 0/1 mask of full aln len `*.gmask-all.gz`

#7 maskedaln tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.masked.sthlm.gz` file	Masked alignment in gzipped Stockholm format `*.sthlm.gz`

#8 pmask_all

`*.pmask-all.gz` file	File with PP-based 0/1 mask of full aln len `*.pmask-all.gz`

Tool	Description	Homepage
hmmer	Biosequence analysis using profile hidden Markov models	http://hmmer.org/

Version	0.0.0-6c4ed3a
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	23 Apr 2026 15:24:14 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fhmmer%2Feslalimask/0.0.0-6c4ed3a/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/hmmer/eslalimask/blobs/sha256:be3e990fbe848ee0103887546576fa8d34812a3c2a1860552650fdb20f756515
Size	3.3 KB
Checksum	sha256:be3e990fbe848ee0103887546576fa8d34812a3c2a1860552650fdb20f756515
Downloads	3