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

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

Performs alignment of BS-Seq reads using bwameth

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @phue

Maintainers: @phue

Performs alignment of BS-Seq reads using bwameth

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

include { BWAMETH_ALIGN } from 'nf-core/bwameth/align'

MIT License

Process

`Name`	`BWAMETH_ALIGN`

Input 3 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`reads` file	List of input FastQ files of size 1 and 2 for single-end and paired-end data, respectively.

#2 tuple

`meta2` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`fasta` file	Input genome fasta file

#3 tuple

`meta3` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`index` directory	Directory containing bwameth genome index

Output 3 channels

#1 bam tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.bam` file	Output BAM file containing read alignments `*.{bam}`

#2 versions_bwameth tuple

`${task.process}` string	The name of the process
`bwameth` string	The name of the tool
`bwameth.py --version \| cut -f2 -d ' '` eval	The expression to obtain the version of the tool

#3 versions_samtools tuple

`${task.process}` string	The name of the process
`samtools` string	The name of the tool
`samtools version \| sed '1!d;s/.* //'` eval	The expression to obtain the version of samtools

Tool	Description	Homepage
bwameth	Fast and accurate alignment of BS-Seq reads using bwa-mem and a 3-letter genome.	https://github.com/brentp/bwa-meth

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:28:56 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fbwameth%2Falign/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/bwameth/align/blobs/sha256:8c662b82144d93d5fa4a3ddba1b83b0a4dcc47f15e2931c584be0868e3f0964e
Size	2.8 KB
Checksum	sha256:8c662b82144d93d5fa4a3ddba1b83b0a4dcc47f15e2931c584be0868e3f0964e
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:28:56 (UTC)		1	2.8 KB	-