Nextflow Registry | nf-core/localcdsearch/annotate@0.0.0-6c4ed3a

nf-core/localcdsearch/annotate @ 0.0.0-6c4ed3a

A command-line tool for local protein domain annotation using NCBI's Conserved Domain Database (CDD)

cdd rpsblast rpsbproc protein domain annotation

Latest version: 0.0.0-6c4ed3a

Total downloads: 5

Source: nf-core/modules

Authors: @Ales-ibt

Maintainers: @Ales-ibt

A command-line tool for local protein domain annotation using NCBI's Conserved Domain Database (CDD)

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

include { LOCALCDSEARCH_ANNOTATE } from 'nf-core/localcdsearch/annotate'

MIT License

Process

`Name`	`LOCALCDSEARCH_ANNOTATE`

Input 3 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`fasta` file	Input fasta file containing protein queries sequences `*.{fa,fasta,fa.gz,fasta.gz}`

`db` directory	Directory containing the metadata and databse directories `*`

`sites` boolean	When true an extra tsv output file is generated

Output 3 channels

#1 result tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*_results.tsv` file	tab-separated file with hits filtered by CDD's curated bit-score thresholds `*_results.tsv`

#2 annot_sites tuple

`meta` map	Groovy Map containing sample information e.g. `[ id:'sample1' ]`
`*_sites.tsv` file	If --sites-output is specified, an additional tab-separated file is created with functional site annotations `*_sites.tsv`

#3 versions_localcdsearch tuple

`${task.process}` string	The name of the process
`local-cd-search` string	The name of the tool
`0.3.0` string	The expression to obtain the version of the tool

Tool	Description	Homepage
localcdsearch	Protein annotation using local PSSM databases from CDD.	https://github.com/apcamargo/local-cd-search

Version	0.0.0-6c4ed3a
Commit ID	6c4ed3a220310b905a1fc9d04f05be2e0837142b
Release Date	23 Apr 2026 15:27:50 (UTC)
Download URL	https://registry.nextflow.io/api/v1/modules/nf-core%2Flocalcdsearch%2Fannotate/0.0.0-6c4ed3a/download
OCI Store URL	https://public.cr.seqera.io/v2/nextflow/plugin/modules/nf-core/localcdsearch/annotate/blobs/sha256:4e238cf28545c14d230e65517677b3cb64683785aaa217660c48437f089ddf42
Size	2.8 KB
Checksum	sha256:4e238cf28545c14d230e65517677b3cb64683785aaa217660c48437f089ddf42
Downloads	3

Version	Date	Downloads	Size
0.0.0-6c4ed3a	23 Apr 2026 15:27:50 (UTC)	3	2.8 KB
0.0.0-3fc6d40	22 Apr 2026 15:19:24 (UTC)	1	2.8 KB
0.0.0-0c7146d	08 Apr 2026 19:14:13 (UTC)	1	2.8 KB