Nextflow Registry | nf-core/parabricks/deepvariant@0.0.0-0c7146d

nf-core/parabricks/deepvariant @ 0.0.0-0c7146d

NVIDIA Clara Parabricks GPU-accelerated germline variant calling, replicating deepvariant.

variant deep variant vcf haplotypecaller germline

Latest version: 0.0.0-0c7146d

Total downloads: 4

Source: nf-core/modules

Authors: @bsiranosian

Maintainers: @famosab

NVIDIA Clara Parabricks GPU-accelerated germline variant calling, replicating deepvariant.

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

include { PARABRICKS_DEEPVARIANT } from 'nf-core/parabricks/deepvariant'

MIT License

Process

`Name`	`PARABRICKS_DEEPVARIANT`

Input 2 channels

#1 tuple

`meta` map	Groovy Map containing tumor sample information - id must match read groups for this sample. [ id:'test']
`input` file	bam file for sample to be variant called. `*.bam`
`input_index` file	bai index corresponding to input bam file. Only necessary if intervals are provided. `*.bai`
`intervals` file	file or files containing genomic intervals for use in base quality score recalibration. `*.{bed,interval_list,picard,list,intervals}`

#2 tuple

`ref_meta` map	Groovy Map containing reference information. [ id:'test']
`fasta` file	reference fasta - must be unzipped. `*.fasta`

Output 4 channels

#1 vcf tuple

`meta` map	Groovy Map containing sample information. e.g. [ id:'test' ]
`*.vcf.gz` file	vcf file created with deepvariant (does not support .gz for normal vcf), optional `*.vcf`

#2 gvcf tuple

`meta` map	Groovy Map containing sample information. e.g. [ id:'test' ]
`*.g.vcf.gz` file	bgzipped gvcf created with deepvariant, optional `*.g.vcf.gz`

#3 compatible_versions

`compatible_versions.yml` file	File containing info on compatible CPU-based software versions. `compatible_versions.yml`

#4 versions_parabricks tuple

`${task.process}` string	The process the versions were collected from
`parabricks` string	The tool name
`pbrun version \| grep -m1 '^pbrun:' \| sed 's/^pbrun:[[:space:]]*//'` string	The command used to generate the version of the tool

Tool	Description	Homepage
parabricks	NVIDIA Clara Parabricks GPU-accelerated genomics tools	https://www.nvidia.com/en-us/clara/genomics/

Version	0.0.0-0c7146d
Commit ID	0c7146d85582628b5d1034504702fa808632b1af
Release Date	08 Apr 2026 19:23:58 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fparabricks%2Fdeepvariant/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/parabricks/deepvariant/blobs/sha256:756bf9a0d31b2e0d7b5d89963804c0aed925a366b303b3e2a9c3cedeccaeb7fb
Size	6.7 KB
Checksum	sha256:756bf9a0d31b2e0d7b5d89963804c0aed925a366b303b3e2a9c3cedeccaeb7fb
Downloads	4

Version	Date	Status	Downloads	Size
0.0.0-0c7146d	08 Apr 2026 19:23:58 (UTC)		4	6.7 KB