Orthology Inference Python Packages

fdog

Feature-aware Directed OrtholoG search

phylopypruner

Tree-based orthology inference with functionality for reducing contamination

orthoevol

An easy to use and comprehensive python package which aids in the analysis and visualization of orthologous genes. 🐵

orthofisher

a broadly applicable tool for automated gene identification and retrieval

thoraxe

Use Thor's Axe to cut exons into their evolutionary building blocks :zap:

orthosnap

a tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees

dcc2

Dynamic core orthologs compilation tool

h1s

Feature-aware orthology prediction tool. Provided data package: Quest for Orthologs reference gene sets 2019.

deepnog

Protein orthologous group assignment with deep learning

hamstr1s

Feature-aware orthology prediction tool. Provided data package: Quest for Orthologs reference gene sets 2019.

transcriptorthology

Algorithm to infer clusters of isoorthologous transcripts using gene-level homology relationships and a Reciprocal Best Hits approach

datasnakes

An easy to use and comprehensive python package which aids in the analysis and visualization of orthologous genes. 🐵