Nextflow Registry | nf-core/coptr/extract@0.0.0-0c7146d

nf-core/coptr/extract @ 0.0.0-0c7146d

Computes the coverage map along the reference genome

coptr mapping ptr

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @ramirobarrantes

Maintainers: @ramirobarrantes

Computes the coverage map along the reference genome

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

include { COPTR_EXTRACT } from 'nf-core/coptr/extract'

MIT License

Process

`Name`	`COPTR_EXTRACT`

Input 1 channel

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`bam` file	bam file with the mapping of the reads on the reference genome `*.{.bam}`

Output 2 channels

#1 coverage tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`*.pkl` file	Python pickle (pkl) file containing coverage along the reference genome `*.{pkl}`

#2 versions_coptr tuple

`${task.process}` string	The name of the process
`coptr` string	The name of the tool
`coptr \|& sed -E '11!d ; s/CoPTR.?$v(.?)$.*/\1/'` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
coptr	Accurate and robust inference of microbial growth dynamics from metagenomic sequencing reads.	https://github.com/tyjo/coptr

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:32:59 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fcoptr%2Fextract/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/coptr/extract/blobs/sha256:c2722273fe62434daa7cbd5515196aed1c88a6c13090d17247c0a3a235ba1deb
Size	2.4 KB
Checksum	sha256:c2722273fe62434daa7cbd5515196aed1c88a6c13090d17247c0a3a235ba1deb
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:32:59 (UTC)		1	2.4 KB	-