Profylo: A Python Package for Phylogenetic Profile Comparison and Analysis.

ABSTRACT: Phylogenetic profiling, involving the analysis of presence-absence of orthologs in a set of species, is a way to infer functional association between genes through co-evolutionary patterns. Since its inception, numerous methods have been described to construct phylogenetic profiles, evaluate their similarity, or identify clusters of co-evolving genes. However, few of these methods are available as downloadable software. We present Profylo, a phylogenetic profiling toolkit made available as an open-source Python 3.0 package. Profylo implements seven methods for comparing phylogenetic profiling, four algorithms for identification of co-evolving clusters, as well as tools to help with their analysis, including visualization features. We take advantage of the variety of methods implemented in

SUBMITTER: Schoenstein M 

PROVIDER: S-EPMC12756282 | biostudies-literature | 2025 Dec

REPOSITORIES: biostudies-literature