A Bio2BEL package for the terminology from FlyBase (http://flybase.org/)
Supplementary data and pipelines for analyzing genome gene content data and morphology to create various phylogenies.
The Docker integration for the r2g project.
A Bio2BEL package for converting the Mouse Genome Informatics Database (MGI) to BEL
orthology_map is a pipeline designed to integrate suite of orthology assignment tools to contribute in a consensus based scoring algorithm
A Bio2BEL package for converting Entrez and HomoloGene to BEL
A stand-alone tool for evaluating simple statistics of orthologs
a tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees
a broadly applicable tool for automated gene identification and retrieval
a python package for automated generation of phylogenetic trees from genbank files
Tree-based orthology inference with functionality for reducing contamination
Research compendium for Viscardi et al, 2020.
Workflow for identifying and classifying homologous gene/protein sequences
A homology-based, computationally lightweight pipeline for discovering genes in the absence of an assembly
Feature-aware orthology prediction tool. Provided data package: Quest for Orthologs reference gene sets 2019.
Feature-aware Directed OrtholoG search
This curation tool allows curators to make precise assertions as to when functions were gained and lost during evolution and record the evidence (e.g. experimentally supported GO annotations and phylogenetic information including orthology) for those assertions.
An easy to use and comprehensive python package which aids in the analysis and visualization of orthologous genes. 🐵
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