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

nf-core/pyrodigal @ 0.0.0-0c7146d

Pyrodigal is a Python module that provides bindings to Prodigal, a fast, reliable protein-coding gene prediction for prokaryotic genomes.

sort annotation prediction prokaryote

Latest version: 0.0.0-0c7146d

Total downloads: 1

Source: nf-core/modules

Authors: @louperelo

Maintainers: @louperelo

Pyrodigal is a Python module that provides bindings to Prodigal, a fast, reliable protein-coding gene prediction for prokaryotic genomes.

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

include { PYRODIGAL } from 'nf-core/pyrodigal'

MIT License

Process

`Name`	`PYRODIGAL`

Input 2 channels

#1 tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`fasta` file	FASTA file `*.{fasta.gz,fa.gz,fna.gz}`

`output_format` string	Output format `{gbk,gff}`

Output 5 channels

#1 faa tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.faa.gz` file	protein translations file `*.{faa.gz}`

#2 fna tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.fna.gz` file	nucleotide sequences file `*.{fna.gz}`

#3 score tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.score.gz` file	all potential genes (with scores) `*.{score.gz}`

#4 versions

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

#5 annotations tuple

`meta` map	Groovy Map containing sample information e.g. [ id:'test', single_end:false ]
`*.${output_format}.gz` file	Gene annotations. The file format is specified via input channel "output_format". `*.{gbk,gff}.gz`

Tool	Description	Homepage
pyrodigal	Pyrodigal is a Python module that provides bindings to Prodigal (ORF finder for microbial sequences) using Cython.	https://pyrodigal.readthedocs.org/

Version	0.0.0-0c7146d
Commit ID	135d883a43b1a2324b4112cd270cf22e20835533
Release Date	08 Apr 2026 19:06:20 (UTC)
Download URL	https://registry-stage.nextflow.io/api/v1/modules/nf-core%2Fpyrodigal/0.0.0-0c7146d/download
OCI Store URL	https://public.cr.stage-seqera.io/v2/nextflow/plugin-stage/modules/nf-core/pyrodigal/blobs/sha256:8b6a30b5d872e13be572b16394b97dc205f72ec0d1f3c69577ff99dadf38ecea
Size	3.3 KB
Checksum	sha256:8b6a30b5d872e13be572b16394b97dc205f72ec0d1f3c69577ff99dadf38ecea
Downloads	1

Version	Date	Status	Downloads	Size	Diff
0.0.0-0c7146d	08 Apr 2026 19:06:20 (UTC)		1	3.3 KB	-