Phylemon: a suite of web tools for molecular evolution, phylogenetics and phylogenomics

TitlePhylemon: a suite of web tools for molecular evolution, phylogenetics and phylogenomics
Publication TypeJournal Article
Year of Publication2007
AuthorsTarraga, J, Medina, I, Arbiza, L, Huerta-Cepas, J, Gabaldón, T, Dopazo, J, Dopazo, H
JournalNucleic Acids Res
KeywordsAnimals Computational Biology/*methods Databases; DNA Sequence Analysis; Genetic Evolution; Molecular Genetic Techniques Humans *Internet Models; Protein Software User-Computer Interface; Statistical *Phylogeny Programming Languages Sequence Alignment Sequence Analysis

Phylemon is an online platform for phylogenetic and evolutionary analyses of molecular sequence data. It has been developed as a web server that integrates a suite of different tools selected among the most popular stand-alone programs in phylogenetic and evolutionary analysis. It has been conceived as a natural response to the increasing demand of data analysis of many experimental scientists wishing to add a molecular evolution and phylogenetics insight into their research. Tools included in Phylemon cover a wide yet selected range of programs: from the most basic for multiple sequence alignment to elaborate statistical methods of phylogenetic reconstruction including methods for evolutionary rates analyses and molecular adaptation. Phylemon has several features that differentiates it from other resources: (i) It offers an integrated environment that enables the direct concatenation of evolutionary analyses, the storage of results and handles required data format conversions, (ii) Once an outfile is produced, Phylemon suggests the next possible analyses, thus guiding the user and facilitating the integration of multi-step analyses, and (iii) users can define and save complete pipelines for specific phylogenetic analysis to be automatically used on many genes in subsequent sessions or multiple genes in a single session (phylogenomics). The Phylemon web server is available at


Tarraga, Joaquin Medina, Ignacio Arbiza, Leonardo Huerta-Cepas, Jaime Gabaldon, Toni Dopazo, Joaquin Dopazo, Hernan Research Support, Non-U.S. Gov’t England Nucleic acids research Nucleic Acids Res. 2007 Jul;35(Web Server issue):W38-42. Epub 2007 Apr 22.