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read2tree
a tool for inferring species tree from sequencing readsfold_tree
snakemake pipeline for creating trees from sequence setsOMArk
phylo-io
Phylo.IO JS tree viewerFastOMA
FastOMA is a scalable software package to infer orthology relationship.omamer
OMAmer - tree-driven and alignment-free protein assignment to sub-familiesmatreex
HogProf
Phylogenetic profiling with orthology datapyham
pyopa
A fast implementation of optimal pairwise alignments with pythoniHam
Widget to visualise the evolutionary history of gene familiespylabeledrf
A package to compute the Robinson Fould distance extended to labeled topologies.omamo
OMAMO: orthology-based model organism selectionedgehog
Infering ancestral synteny with hierarchical orthologous groupsALF
ALF artificial life simulatorgo-handbook
Electronic exercises (with solutions) to accompany the book chapter "A Gene Ontology Tutorial in Python" by Alex Warwick Vesztrocy and Christophe Dessimoz, in the collection The Gene Ontology Handbook, C Dessimoz and N Skunca Eds, Spring Humana.esprit2
SIBBiodiversityBioinformatics2023
familyanalyzer-deprecated
pyomadb
PyOMADB is a python client to the OMA browser, using the REST API.OmaStandalone
OMA standalone repositoryOmaDB
Archaeal-Fusexins
Discovery of archaeal Fusexins homologous to eukaryotic HAP2/GCS1 gamete fusion proteinsf1000_OmaPrimer
A complementary analysis to "Identifying Orthologs with OMA: A Primer" in which we show how to compare sub-types of orthologs (pairwise vs. HOG vs. OMA Group)blogpost-code
This repo contains code and notebook associated with various blog postsf1000_PhylogeneticTree
A tutorial on using OMA Browser and OMA Standalone for phylogenetic species trees reconstruction. Scripts referred to in the tutorial paper can be found here.nf-oma-browser-build
Nextflow pipeline to convert OMA to OMA browserpyoma
Python library to interact with OMA hdf5 filesLove Open Source and this site? Check out how you can help us