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

nf-core/conifer @ 0.0.0-0c7146d

Calculate confidence scores from Kraken2 output

classify metagenomics kraken2 confidence

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @icaromsc @rpetit3

Maintainers: @icaromsc @rpetit3

Calculate confidence scores from Kraken2 output

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

include { CONIFER } from 'nf-core/conifer'

MIT License

Process

`Name`	`CONIFER`

Input 2 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`kraken_result` file	Raw Kraken2 standard output file

`kraken_taxon_db` file	Kraken2 taxo.k2d database file

Output 2 channels

#1 score tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.score` file	Conifer report file containing confidence scores of Kraken2 classified reads. `*.score`

#2 versions_conifer tuple

`${task.process}` string	The name of the process
`conifer` string	The name of the tool
`conifer --version 2>&1 \| sed 's/^.*Conifer //'` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
conifer	Calculate confidence scores from Kraken2 output	https://github.com/Ivarz/Conifer

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:32:27 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fconifer/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/conifer/blobs/sha256:8d2e9beddd7284ef1f472311096ae206129d4dc51a979c6f055cfd98e53a3773
Size	2.3 KB
Checksum	sha256:8d2e9beddd7284ef1f472311096ae206129d4dc51a979c6f055cfd98e53a3773
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:32:27 (UTC)		1	2.3 KB	-