Nextflow Registry | nf-core/pyclonevi@0.0.0-0c7146d

nf-core/pyclonevi @ 0.0.0-0c7146d

PyClone-VI is a software for inferring the clonal population structure of cancers by using variant allele frequencies and copy number data of single or multiple samples.

clonal population WGS subclonal deconvolution copy number alterations somatic mutations

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @giorgiagandolfi @elena-buscaroli

Maintainers: @giorgiagandolfi @elena-buscaroli

Summary

PyClone-VI is a software for inferring the clonal population structure of cancers by using variant allele frequencies and copy number data of single or multiple samples.

Get started

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

include { PYCLONEVI } from 'nf-core/pyclonevi'

License

MIT License

Process

`Name`	`PYCLONEVI`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`rds_join` file	RDS file containing the mCNAqc object with joint mutations and copy number segments `*.rds`
`tumour_samples` list	List of tumour sample identifiers for a specific patient

Output 5 channels

#1 ctree_input tuple

`meta` map	Groovy Map containing sample inforSanRafCocoGnd-2024.5 mation
`*_cluster_table.csv` file	Files containing information about identified clusters `*_cluster_table.csv`

#2 pyclone_input tuple

`meta` map	Groovy Map containing sample inforSanRafCocoGnd-2024.5 mation
`*.tsv` file	Files containing the input table for pyclone-vi `*tsv`

#3 pyclone_all_fits tuple

`meta` map	Groovy Map containing sample inforSanRafCocoGnd-2024.5 mation
`*_all_fits.h5` file	H5 file containing all the pyclone-vi output fits `*_all_fits.h5`

#4 pyclone_best_fit tuple

`meta` map	Groovy Map containing sample inforSanRafCocoGnd-2024.5 mation
`*_best_fit.txt` file	TXT file containing the pyclone-vi best fit. `*_best_fit.txt`

#5 versions_pyclonevi

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

Tool	Description	Homepage
pyclonevi	PyClone-VI, a computationally efficient Bayesian statistical method for inferring the clonal population structure of cancers.	https://github.com/Roth-Lab/pyclone-vi

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 19:06:00 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fpyclonevi/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/pyclonevi/blobs/sha256:848c749c84101c899e568b6ad5fc4fa7380bda995d13b722f17c77a3ab2e6c41
Size	4.6 KB
Checksum	sha256:848c749c84101c899e568b6ad5fc4fa7380bda995d13b722f17c77a3ab2e6c41
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 19:06:00 (UTC)		1	4.6 KB	-