×

nf-core/methyldackel/extract @ 0.0.0-6c4ed3a

Extracts per-base methylation metrics from alignments

methylation 5mC methylseq bisulphite bisulfite consensus bedGraph bam cram
Latest version: 0.0.0-6c4ed3a
Total downloads: 9
Source: nf-core/modules
Authors: @phue
Maintainers: @phue @eduard-watchmaker

Summary

Extracts per-base methylation metrics from alignments

Get started

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

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

License

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 0.0.0-6c4ed3a
Commit ID 6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date 23 Apr 2026 15:30:28 (UTC)
Download URL https://registry.nextflow.io/api/v1/modules/nf-core%2Fmethyldackel%2Fextract/0.0.0-6c4ed3a/download
OCI Store URL https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/methyldackel/extract/blobs/sha256:515034c943d1e18a3cc7b248b52f72c4513276f58d3e843aeba227aa82957a70
Size 2.7 KB
Checksum sha256:515034c943d1e18a3cc7b248b52f72c4513276f58d3e843aeba227aa82957a70
Downloads 3
Version Date Status Downloads Size
0.0.0-6c4ed3a 23 Apr 2026 15:30:28 (UTC) 3 2.7 KB
0.0.0-3fc6d40 22 Apr 2026 15:21:43 (UTC) 3 2.7 KB
0.0.0-0c7146d 08 Apr 2026 19:17:45 (UTC) 3 2.7 KB