Metagenomes Python Packages

pyrodigal

Cython bindings and Python interface to Prodigal, an ORF finder for genomes and metagenomes. Now with SIMD!

pyfastani

Cython bindings and Python interface to FastANI, a method for fast whole-genome similarity estimation.

pyskani

PyO3 bindings and Python interface to skani, a method for fast genomic identity calculation using sparse chaining.

gretel

An algorithm for recovering haplotypes from metagenomes

plasflow

PlasFlow - predicting plasmid sequences in metagenomic data

metagenomics-focus

FOCUS: An Agile Profiler for Metagenomic Data

mixs-linkml

A LinkML model for the MIxS standard