title: Phylemon: a suite of web tools for molecular evolution, phylogenetics and phylogenomics.
abstract: 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 http://phylemon.bioinfo.cipf.es.
authors: Bioinformatics Department, Centro de Investigación Príncipe Felipe, INB, CIPF, Valencia 46013, Spain.
authors: Joaquín
authors: J
authors: Tárraga
authors: Ignacio
authors: I
authors: Medina
authors: Leonardo
authors: L
authors: Arbiza
authors: Jaime
authors: J
authors: Huerta-Cepas
authors: Toni
authors: T
authors: Gabaldón
authors: Joaquín
authors: J
authors: Dopazo
authors: Hernán
authors: H
authors: Dopazo
mesh_terms: D000818:Animals; D019295:Computational Biology / Q000379:methods*; D030541:Databases, Genetic; D019143:Evolution, Molecular; D005821:Genetic Techniques; D006801:Humans; D020407:Internet; D015233:Models, Statistical; D010802:Phylogeny; D011381:Programming Languages; D016415:Sequence Alignment; D017422:Sequence Analysis, DNA; D020539:Sequence Analysis, Protein; D012984:Software; D014584:User-Computer Interface