Description

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

Input

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’, single_end

]

fasta (file)

FASTA file

*.{fasta.gz,fa.gz,fna.gz}

Output

Name (Type)
Description
Pattern

meta (map)

Groovy Map containing sample information
e.g. [ id:‘test’, single_end

]

versions (file)

File containing software versions

versions.yml

gff (file)

gene annotations in gff format

*.{gff.gz}

faa (file)

protein translations file

*.{faa.gz}

fna (file)

nucleotide sequences file

*.{fna.gz}

score (file)

all potential genes (with scores)

*.{score.gz}
included in
funcscan
author
Github user louperelo
get in touch
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Tools

pyrodigal
GPL v3

Pyrodigal is a Python module that provides bindings to Prodigal (ORF finder for microbial sequences) using Cython.

pyrodigal.readthedocs.org https://github.com/althonos/pyrodigal/ 10.21105/joss.04296