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: 0.0.0-6c4ed3a

Total downloads: 8

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	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	08 Apr 2026 18:51:52 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Fcircularmapper%2Fcirculargenerator/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/circularmapper/circulargenerator/blobs/sha256:e9d17730bd0f9c5d7486262456d024520eaf9aa43a392c8bf76fb2b390637212
Size	2.6 KB
Checksum	sha256:e9d17730bd0f9c5d7486262456d024520eaf9aa43a392c8bf76fb2b390637212
Downloads	3

Version	Date	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:09:15 (UTC)	2	2.7 KB
0.0.0-3fc6d40	22 Apr 2026 15:05:56 (UTC)	3	2.7 KB
0.0.0-0c7146d	08 Apr 2026 18:51:52 (UTC)	3	2.6 KB