Phylogeny.fr: the phylogenetic platform designed for non-specialists

Abstract

Phylogenetic analysis has become a standard approach across many areas of biology, yet the growing complexity of phylogenetic methods and software remains a major obstacle for non-specialists. Since its launch in 2008, Phylogeny.fr has provided an accessible web platform for building phylogenetic trees using widely accepted methods without requiring local software installation. Here, we present a major redesign and modernization of the service. The new version integrates state-of-the-art tools while preserving historical programs for legacy support and relies on modern web architecture and HPC infrastructure. New interactive React-based viewers, ReSeqt and Reactree, provide intuitive exploration and publication-ready visualization of alignments and trees. The Blast-Explorer companion tool has also been updated and now includes clustering options. By combining ease of use, methodological flexibility, and modern phylogenetic tools, the new Phylogeny.fr addresses the needs of researchers, teachers, and students seeking accessible and reliable phylogenetic analyses.