OrthoGrafter: Rapid Identification of Orthologs from Precomputed Placement in Phylogenetic Trees.

ABSTRACT: The identification of orthologs plays an important role in comparative genomics and function inference. Here, we present OrthoGrafter, a bioinformatics tool for taking one or more query sequences and inferring a set of orthologs drawn from the collection of 143 well annotated species in the PANTHER database of reconciled gene trees. OrthoGrafter takes sets of graft points output by the highly used TreeGrafter software (either the standalone package or InterProScan), and for each one, outputs a list of predicted orthologous genes from the grafted PANTHER tree (with the ability to additionally output paralog and xenolog sets). If the taxonomic identifier for the query is also provided, OrthoGrafter incorporates the novel step of adjusting the graft point to facilitate consistent taxonomic as

SUBMITTER: Williams CM 

PROVIDER: S-EPMC12756373 | biostudies-literature | 2025 Dec

REPOSITORIES: biostudies-literature