Nextflow Registry | nf-core/gatk4/condensedepthevidence@0.0.0-0c7146d

nf-core/gatk4/condensedepthevidence @ 0.0.0-0c7146d

Merges adjacent DepthEvidence records

condensedepthevidence evidence gatk4

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @nvnieuwk

Maintainers: @nvnieuwk

Merges adjacent DepthEvidence records

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

include { GATK4_CONDENSEDEPTHEVIDENCE } from 'nf-core/gatk4/condensedepthevidence'

MIT License

Process

`Name`	`GATK4_CONDENSEDEPTHEVIDENCE`

Input 4 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`depth_evidence` file	The depth evidence file `*.rd.txt.gz`
`depth_evidence_index` file	The index of the depth evidence file `*.rd.txt.gz.tbi`

`fasta` file	Reference FASTA file needed when the input is a CRAM file `*.{fasta,fa}`

`fasta_fai` file	Index of the reference FASTA file needed when the input is a CRAM file `*.fai`

`dict` file	Sequence dictionary of the reference FASTA file needed when the input is a CRAM file `*.dict`

Output 3 channels

#1 versions_gatk4 tuple

`${task.process}` string	The name of the process
`gatk4` string	The name of the tool
`gatk --version \| sed -n '/GATK.v/s/.v//p'` eval	The expression to obtain the version of the tool

#2 condensed_evidence tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.rd.txt.gz` file	The condensed depth evidence `*.rd.txt.gz`

#3 condensed_evidence_index tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.rd.txt.gz.tbi` file	The condensed depth evidence `*.rd.txt.gz.tbi`

Tool	Description	Homepage
gatk4	Genome Analysis Toolkit (GATK4)	https://gatk.broadinstitute.org/hc/en-us

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:41:25 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fgatk4%2Fcondensedepthevidence/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/gatk4/condensedepthevidence/blobs/sha256:665453907d598f0ed818549b9821dce1beb5d4512d82a11c95ba4eaea1d6dc02
Size	3.0 KB
Checksum	sha256:665453907d598f0ed818549b9821dce1beb5d4512d82a11c95ba4eaea1d6dc02
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:41:25 (UTC)		1	3.0 KB	-