Nextflow Registry | nf-core/kaiju/mkfmi@0.0.0-0c7146d

nf-core/kaiju/mkfmi @ 0.0.0-0c7146d

Make Kaiju FMI-index file from a protein FASTA file

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @alxndrdiaz @jfy133

Make Kaiju FMI-index file from a protein FASTA file

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

include { KAIJU_MKFMI } from 'nf-core/kaiju/mkfmi'

MIT License

Process

`Name`	`KAIJU_MKFMI`

Input 4 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'test', single_end:false ]`
`fasta` file	Uncompressed Protein FASTA file (mandatory) `*.{fa,faa,fasta}`

`nodes_dmp` file	NCBI nodes.dmp file (mandatory) `nodes.dmp`

`names_dmp` file	NCBI names.dmp file (mandatory) `names.dmp`

`keep_intermediate` boolean	Keep intermediate files `true\|false`

Output 4 channels

#1 sa tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'test', single_end:false ]`
`*.sa` file	Kaiju intermedite bwt-index file (not needed for classification) `*.{sa}`

#2 bwt tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'test', single_end:false ]`
`*.bwt` file	Kaiju intermedite bwt-index file (not needed for classification) `*.{bwt}`

#3 fmi tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'test', single_end:false ]`
`*.{fmi,dmp}` file	Kaiju FM-index file, and input {names,nodes}.dmp NCBI taxonomy files required for downstream Kaiju commands `*.{fmi,dmp}`

#4 versions_kaiju tuple

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

Tool	Description	Homepage
kaiju	Fast and sensitive taxonomic classification for metagenomics	https://bioinformatics-centre.github.io/kaiju/

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:50:39 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fkaiju%2Fmkfmi/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/kaiju/mkfmi/blobs/sha256:4163d88e5b01c2e7a70e68a6d3732b59138d8275d47bb6d0c279c2e7b5c9be35
Size	2.7 KB
Checksum	sha256:4163d88e5b01c2e7a70e68a6d3732b59138d8275d47bb6d0c279c2e7b5c9be35
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:50:39 (UTC)		1	2.7 KB	-