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

nf-core/jasminesv @ 0.0.0-0c7146d

Jointly Accurate Sv Merging with Intersample Network Edges

jasminesv jasmine structural variants vcf bam

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @nvnieuwk

Maintainers: @nvnieuwk

Jointly Accurate Sv Merging with Intersample Network Edges

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

include { JASMINESV } from 'nf-core/jasminesv'

MIT License

Process

`Name`	`JASMINESV`

Input 4 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`vcfs` list	The VCF files that need to be merged `*.{vcf,vcf.gz}`
`bams` list	Optional - The BAM files from which the VCFs were created `*.bam`
`bais` list	Optional - The BAM index files from which the VCFs were created `*.bai`
`sample_dists` file	Optional - A txt file containing the distance thresholds for each sample `*.txt`

#2 tuple

`meta2` map	Groovy Map containing fasta information e.g. [ id:'test', single_end:false ]
`fasta` file	Optional - The reference FASTA file used to create the VCFs `*.{fasta,fa}`

#3 tuple

`meta3` map	Groovy Map containing fasta index information e.g. [ id:'test', single_end:false ]
`fasta_fai` file	Optional - The index of the reference FASTA file used to create the VCFs `*.fai`

`chr_norm` file	Optional - A txt file containing the chromosomes and their aliases for normalization `*.txt`

Output 3 channels

#1 vcf tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.vcf.gz` file	The merged VCF file `*.vcf.gz`

#2 versions_bgzip tuple

`${task.process}` string	The name of the process
`bgzip` string	The name of the tool
`bgzip --version \| head -1 \| sed -e "s/bgzip (htslib) //"` eval	The expression to obtain the version of the tool

#3 versions_jasminesv tuple

`${task.process}` string	The name of the process
`jasminesv` string	The name of the tool
`jasmine 2>&1 \| grep "version" \| sed "s/Jasmine version //"` eval	The version of the tool

Tool	Description	Homepage
jasminesv	Software for merging structural variants between individuals	https://github.com/mkirsche/Jasmine/wiki/Jasmine-User-Manual

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:49:43 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fjasminesv/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/jasminesv/blobs/sha256:853b8b95c2a0040b9296b3fb416c9d4ea5f165e2bf576f4c7a0bde92eb90f7c5
Size	4.0 KB
Checksum	sha256:853b8b95c2a0040b9296b3fb416c9d4ea5f165e2bf576f4c7a0bde92eb90f7c5
Downloads	1

Version	Date	Status	Downloads