Nextflow Registry | nf-core/methyldackel/extract@0.0.0-0c7146d

nf-core/methyldackel/extract @ 0.0.0-0c7146d

Extracts per-base methylation metrics from alignments

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @phue

Maintainers: @phue @eduard-watchmaker

Extracts per-base methylation metrics from alignments

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

include { METHYLDACKEL_EXTRACT } from 'nf-core/methyldackel/extract'

MIT License

Process

`Name`	`METHYLDACKEL_EXTRACT`

Input 4 channels

#1 tuple

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

#2 tuple

`meta2` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`bai` file	BAM/CRAM index file `*.{bai,crai}`

#3 tuple

`meta3` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`fasta` file	Input genome fasta file `*.{fasta,fa}`

#4 tuple

`meta4` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`fai` file	FASTA index file `*.{fai}`

Output 3 channels

#1 bedgraph tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.bedGraph` file	bedGraph file, containing per-base methylation metrics `*.bedGraph`

#2 versions

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

#3 methylkit tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.methylKit` file	methylKit file, containing per-base methylation metrics `*.methylKit`

Tool	Description	Homepage
methyldackel	Methylation caller from MethylDackel, a (mostly) universal methylation extractor for methyl-seq experiments.	https://github.com/dpryan79/MethylDackel

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:55:33 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fmethyldackel%2Fextract/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/methyldackel/extract/blobs/sha256:55764151b8f03f5f2a1716e92117870418631d444f7e9befee5c286894a62350
Size	2.6 KB
Checksum	sha256:55764151b8f03f5f2a1716e92117870418631d444f7e9befee5c286894a62350
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:55:33 (UTC)		1	2.6 KB	-