Nextflow Registry | nf-core/crabs/import@0.0.0-0c7146d

nf-core/crabs/import @ 0.0.0-0c7146d

In-house generated or curated data can be imported into CRABS.

insilico amplicon sequencing inhouse

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @famosab @a4000

Maintainers: @famosab @a4000

In-house generated or curated data can be imported into CRABS.

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

include { CRABS_IMPORT } from 'nf-core/crabs/import'

MIT License

Process

`Name`	`CRABS_IMPORT`

Input 5 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`fasta` file	In-house sequencing data `*.{fa,fasta}`

#2 tuple

`meta2` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`accession2taxid` file	Linking accession numbers to taxonomic IDs `*.accession2taxid`

#3 tuple

`meta3` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`names` file	Containing information about the phylogenetic name associated with each taxonomic ID `*.dmp`

#4 tuple

`meta4` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`nodes` file	Containing information how taxonomic IDs are linked `*.dmp`

`import_format` string	Name of the repository from which the data was downloaded, i.e., BOLD, EMBL, GreenGenes, MIDORI, MITOFISH, NCBI, SILVA, or UNITE.

Output 2 channels

#1 crabsdb tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*.txt` file	Reverse complemented Sequence `*.txt`

#2 versions_crabs tuple

`${task.process}` string	The name of the process
`crabs` string	The name of the tool
`crabs --help 2>/dev/null \| grep -oE 'v[0-9.]+' \| cut -c2-` eval	The expression to obtain the version of the tool

Tool	Description	Homepage
crabs	Crabs (Creating Reference databases for Amplicon-Based Sequencing) is a program to download and curate reference databases for eDNA metabarcoding analyses	https://github.com/gjeunen/reference_database_creator

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 18:33:14 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fcrabs%2Fimport/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/crabs/import/blobs/sha256:7616bc2acdfea713404fb8544f547789108d3a21bc8f7e94962a6673154ab4e3
Size	2.9 KB
Checksum	sha256:7616bc2acdfea713404fb8544f547789108d3a21bc8f7e94962a6673154ab4e3
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 18:33:14 (UTC)		1	2.9 KB	-