Nextflow Registry | nf-core/strdust@0.0.0-6c4ed3a

nf-core/strdust @ 0.0.0-6c4ed3a

Tandem repeat genotyper for long reads

long read tandem repeats genomics

Latest version: 0.0.0-6c4ed3a

Total downloads: 6

Source: nf-core/modules

Authors: @Schmytzi

Maintainers: @Schmytzi

Tandem repeat genotyper for long reads

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

include { STRDUST } from 'nf-core/strdust'

MIT License

Process

`Name`	`STRDUST`

Input 4 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`bam` file	Sorted (and preferably phased) BAM/CRAM file. Add command line argument `--unphased` if reads are not phased. `*.{bam,cram}`
`bai` file	Index of BAM/CRAM file `*.{bai,crai,csi}`

#2 tuple

`meta2` map	Groovy Map containing reference information e.g. `[ id: 'GRCh38' ]`
`fasta` file	Reference genome `*.{fa,fasta,fna}?(.gz)`

#3 tuple

`meta3` map	Groovy Map containing reference information e.g. `[ id: 'GRCh38' ]`
`fai` file	Index of reference genome `*.{fai,gzi}`

#4 tuple

`meta4` map	Groovy Map containing interval information e.g. `[ id: "GRCh38_strs" ]`
`bed` file	BED file containing STR regions to genotype (optional) `*.bed`

Output 4 channels

#1 tbi tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`*.tbi` file	Index of output VCF. Output only if VCF is sorted (i.e. `--sorted` was specified). `*.tbi`

#2 vcf tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`*.vcf.gz` file	Called tandem repeats as VCF file. Sorted if `--sorted` command line argument was specified. `*.vcf.gz`

#3 versions_bgzip tuple

`${task.process}` string	The name of the process
`bgzip` string	The name of the tool
`bgzip --version \|& sed '1!d ; s/bgzip (htslib) //'` eval	The expression to obtain the version of the tool

#4 versions_strdust tuple

`${task.process}` string	The name of the process
`strdust` string	The name of the tool
`STRdust --version \|& sed '1!d ; s/STRdust //'` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
STRdust	Tandem repeat genotyper for long reads.	https://github.com/wdecoster/STRdust/

Version	0.0.0-6c4ed3a
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	23 Apr 2026 15:47:40 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fstrdust/0.0.0-6c4ed3a/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/strdust/blobs/sha256:69116dca361cf6385ac6470a26307a248be08b14ef24f77beb32fc6992d4f9a9
Size	3.7 KB
Checksum	sha256:69116dca361cf6385ac6470a26307a248be08b14ef24f77beb32fc6992d4f9a9