Nextflow Registry | nf-core/taxonkit/name2taxid@0.0.0-0c7146d

nf-core/taxonkit/name2taxid @ 0.0.0-0c7146d

Convert taxon names to TaxIds

taxonomy taxids taxon name conversion

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @mahesh-panchal

Maintainers: @mahesh-panchal

Convert taxon names to TaxIds

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

include { TAXONKIT_NAME2TAXID } from 'nf-core/taxonkit/name2taxid'

MIT License

Process

`Name`	`TAXONKIT_NAME2TAXID`

Input 2 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`name` string	Taxon name to look up (provide either this or names.txt, not both)
`names_txt` file	File with taxon names to look up, each on their own line (provide either this or name, not both)

`taxdb` file	Taxonomy database unpacked from ftp://ftp.ncbi.nih.gov/pub/taxonomy/taxdump.tar.gz

Output 2 channels

#1 tsv tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1', single_end:false ]`
`*.tsv` file	TSV file of Taxon names and their taxon ID `*.tsv`

#2 versions

`versions.yml` file	File containing software versions `versions.yml`

Tool	Description	Homepage
taxonkit	A Cross-platform and Efficient NCBI Taxonomy Toolkit	https://bioinf.shenwei.me/taxonkit/

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 19:18:50 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Ftaxonkit%2Fname2taxid/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/taxonkit/name2taxid/blobs/sha256:65a8cbdb44856f5c66d86a44415c17ecc1d8ecc5905b59ff3b3145715f041cf5
Size	2.5 KB
Checksum	sha256:65a8cbdb44856f5c66d86a44415c17ecc1d8ecc5905b59ff3b3145715f041cf5
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 19:18:50 (UTC)		1	2.5 KB	-