Nextflow Registry | nf-core/circularmapper/circulargenerator@0.0.0-0c7146d

nf-core/circularmapper/circulargenerator @ 0.0.0-0c7146d

A method to improve mappings on circular genomes, using the BWA mapper.

bwa circular mapping genomics

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @apalleja @TCLamnidis

Maintainers: @

A method to improve mappings on circular genomes, using the BWA mapper.

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

include { CIRCULARMAPPER_CIRCULARGENERATOR } from 'nf-core/circularmapper/circulargenerator'

MIT License

Process

`Name`	`CIRCULARMAPPER_CIRCULARGENERATOR`

Input 3 channels

#1 tuple

`meta` map	Groovy Map containing reference information e.g. `[ id:'sample1' ]`
`reference` file	Genome fasta file `*.fasta`

#2 tuple

`meta2` map	Groovy Map containing reference information e.g. `[ id:'sample1' ]`
`elongation_factor` integer	The number of bases that the ends of the target chromosome in the reference genome should be elongated by

#3 tuple

`meta3` map	Groovy Map containing reference information e.g. `[ id:'sample1' ]`
`target` string	The name of the chromosome in the reference genome that should be elongated

Output 3 channels

#1 fasta tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`*_${elongation_factor}.fasta` file	Genome fasta file `*.fasta`

#2 elongated tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`*${elongation_factor}_elongated` file	File listing the chromosomes that were elongated `*_elongated`

#3 versions_circulargenerator tuple

`${task.process}` string	The name of the process
`circulargenerator` string	The name of the tool
`circulargenerator -h \| sed -n 's/usage: CircularGeneratorv//p'` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
circulargenerator	Creating a modified reference genome, with an elongation of the an specified amount of bases	https://github.com/apeltzer/CircularMapper

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:30:48 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fcircularmapper%2Fcirculargenerator/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/circularmapper/circulargenerator/blobs/sha256:df2b56b539d6d89784b7eb7dc7b3be3c4c2359212981945e118591ae1faa4580
Size	2.7 KB
Checksum	sha256:df2b56b539d6d89784b7eb7dc7b3be3c4c2359212981945e118591ae1faa4580
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:30:48 (UTC)		1	2.7 KB	-