Getphylo: rapid and automatic generation of multi-locus phylogenetic trees.

ABSTRACT:

Background

The increasing amount of genomic data calls for tools that can create genome-scale phylogenies quickly and efficiently. Existing tools rely on large reference databases or require lengthy de novo calculations to identify orthologues, meaning that they have long run times and are limited in their taxonomic scope. To address this, we created getphylo, a python tool for the rapid generation of phylogenetic trees de novo from annotated sequences.

Results

We present getphylo (Genbank to Phylogeny), a tool that automatically builds phylogenetic trees from annotated genomes alone. Orthologues are identified heuristically by searching for singletons (single copy genes) across all input genomes and the phylogeny is inferred from a concatenated alignment of all coding seque

SUBMITTER: Booth TJ 

PROVIDER: S-EPMC11748604 | biostudies-literature | 2025 Jan

REPOSITORIES: biostudies-literature