API Reference

GeneFinder

pyrodigal.GeneFinder

A configurable gene finder for genomes and metagenomes.

TrainingInfo

pyrodigal.TrainingInfo

A collection of parameters obtained after training.

MetagenomicBin

pyrodigal.MetagenomicBin

A pre-trained collection used to find genes in metagenomic mode.

pyrodigal.MetagenomicBins

An indexed list of MetagenomicBin to use in meta-mode.

Genes

pyrodigal.Genes

A list of raw genes found by Prodigal in a single sequence.

pyrodigal.Gene

A single raw gene found by Prodigal within a DNA sequence.

Nodes

pyrodigal.Nodes

A list of dynamic programming nodes used by Prodigal to score ORFs.

pyrodigal.Node

A dynamic programming node used by Prodigal to score ORFs.

Sequence

pyrodigal.Sequence

A digitized input sequence.

Masks

pyrodigal.Masks

A list of masked regions within a Sequence.

pyrodigal.Mask

The coordinates of a masked region.