phylogenomics topic
phylociraptor
rapid phylogenomic tree calculator - A highly customizable framework for reproducible phylogenomic inference
HyDe
Hybridization detection using phylogenetic invariants
ClipKIT
a multiple sequence alignment-trimming algorithm for accurate phylogenomic inference
orthofisher
a broadly applicable tool for automated gene identification and retrieval
orthosnap
a tree splitting and pruning algorithm for retrieving single-copy orthologs from gene family trees
TIB-filoinfo
Talleres Internacionales de Bioinformática - Centro de Ciencias Genómicas, UNAM, Cuernavaca, México
syntenet
An R package to infer and analyze synteny networks from protein sequences
rMAP
Bacterial analysis toolbox for full ESKAPE pathogen characterization and profiling the resistome, mobilome, virulome & phylogenomics using WGS
phantasm
PHANTASM: PHylogenomic ANalyses for the TAxonomy and Systematics of Microbes
libpll
Phylogenetic Likelihood Library