Nextflow Registry | nf-core/whatshap/stats@0.0.0-0c7146d

nf-core/whatshap/stats @ 0.0.0-0c7146d

Compute statistics from phased variant file using Whatshap

vcf whatshap stats phasing phase

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @eliottBo

Maintainers: @eliottBo

Compute statistics from phased variant file using Whatshap

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

include { WHATSHAP_STATS } from 'nf-core/whatshap/stats'

MIT License

Process

`Name`	`WHATSHAP_STATS`

Input 4 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'sample1' ]
`vcf` file	Phased variant vcf file `*.vcf`

`include_tsv_output` boolean	Whether to include TSV output file

`include_gtf_output` boolean	Whether to include GTF output file

`inlude_block_output` boolean	Whether to include block list output file

Output 5 channels

#1 gtf tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'sample1' ]
`${prefix}.gtf` file	Whatshap stats output in GTF format `*.gtf`

#2 log tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'sample1' ]
`${prefix}.log` file	Whatshap stats output in TXT format `*.log`

#3 tsv tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'sample1' ]
`${prefix}.tsv` file	Whatshap stats output in TSV format `*.tsv`

#4 block tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'sample1' ]
`${prefix}.txt` file	Whatshap stats block list output `*.txt`

#5 versions_whatshap tuple

`${task.process}` string	The name of the process
`whatshap` string	The name of the tool
`whatshap --version` string	The expression to obtain the version of the tool

Tool	Description	Homepage
whatshap	Phase genomic variants using DNA sequencing reads (haplotype assembly).	https://whatshap.readthedocs.io

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 19:23:31 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fwhatshap%2Fstats/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/whatshap/stats/blobs/sha256:a0f80fb48f9cbf3a5f7320e50962075eb5564eaf2551d703c14b5855ef5557ab
Size	2.9 KB
Checksum	sha256:a0f80fb48f9cbf3a5f7320e50962075eb5564eaf2551d703c14b5855ef5557ab
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 19:23:31 (UTC)		1	2.9 KB	-