Nextflow Registry | nf-core/sentieon/tnfilter@0.0.0-6c4ed3a

nf-core/sentieon/tnfilter @ 0.0.0-6c4ed3a

Filters the raw output of sentieon/tnhaplotyper2.

tnfilter filter sentieon tnhaplotyper2 vcf

Latest version: 0.0.0-6c4ed3a

Total downloads: 6

Source: nf-core/modules

Authors: @asp8200

Filters the raw output of sentieon/tnhaplotyper2.

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

include { SENTIEON_TNFILTER } from 'nf-core/sentieon/tnfilter'

MIT License

Process

`Name`	`SENTIEON_TNFILTER`

Input 3 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test' ]
`vcf` file	compressed vcf file from tnhaplotyper2 `*.vcf.gz`
`vcf_tbi` file	Tabix index of vcf file `*vcf.gz.tbi`
`stats` file	Stats file that pairs with output vcf file `*vcf.gz.stats`
`contamination` file	the location and file name of the file containing the contamination information produced by ContaminationModel. `*.contamination_data.tsv`
`segments` file	the location and file name of the file containing the tumor segments information produced by ContaminationModel. `*.segments`
`orientation_priors` file	the location and file name of the file containing the orientation bias information produced by OrientationBias. `*.orientation_data.tsv`

#2 tuple

`meta2` map	Groovy Map containing reference information. e.g. [ id:'test' ]
`fasta` file	The reference fasta file `*.fasta`

#3 tuple

`meta3` map	Groovy Map containing reference information. e.g. [ id:'test' ]
`fai` file	Index of reference fasta file `*.fasta.fai`

Output 4 channels

#1 tbi tuple

`meta` file	file containing filtered tnhaplotyper2 calls. `*.vcf.gz`
`*.vcf.gz.tbi` file	tbi file that pairs with vcf. `*.vcf.gz.tbi`

#2 vcf tuple

`meta` file	file containing filtered tnhaplotyper2 calls. `*.vcf.gz`
`*.vcf.gz` file	file containing filtered tnhaplotyper2 calls. `*.vcf.gz`

#3 stats tuple

`meta` file	file containing filtered tnhaplotyper2 calls. `*.vcf.gz`
`*.vcf.gz.stats` file	file containing statistics of the tnfilter run. `*.stats`

#4 versions_sentieon tuple

`${task.process}` string	The process the versions were collected from
`sentieon` string	The tool name
`sentieon driver --version \| sed "s/.*-//g"` string	The command used to generate the version of the tool

Tool	Description	Homepage
sentieon	Sentieon® provides complete solutions for secondary DNA/RNA analysis for a variety of sequencing platforms, including short and long reads. Our software improves upon BWA, STAR, Minimap2, GATK, HaplotypeCaller, Mutect, and Mutect2 based pipelines and is deployable on any generic-CPU-based computing system.	https://www.sentieon.com/

Version	0.0.0-6c4ed3a
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	23 Apr 2026 15:44:11 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fsentieon%2Ftnfilter/0.0.0-6c4ed3a/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/sentieon/tnfilter/blobs/sha256:4e968fc626da9c73ffda8413b5e2228d7311cf6abbb8501b7a9502661f1acce3
Size	3.7 KB