Journal
BIOINFORMATICS
Volume 35, Issue 13, Pages 2320-2322Publisher
OXFORD UNIV PRESS
DOI: 10.1093/bioinformatics/bty966
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Funding
- National Institutes of Health [R01-HG008161, R35-GM127070]
- NATIONAL HUMAN GENOME RESEARCH INSTITUTE [R01HG008161] Funding Source: NIH RePORTER
- NATIONAL INSTITUTE OF GENERAL MEDICAL SCIENCES [R35GM127070] Funding Source: NIH RePORTER
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The Phylogenetic Analysis with Space/Time models (PHAST) package is a widely used software package for comparative genomics that has been freely available for download since 2002. Here, we introduce a web interface (phastWeb) that makes it possible to use two of the most popular programs in PHAST, phastCons and phyloP, without downloading and installing the PHAST software. This interface allows users to upload a sequence alignment and either upload a corresponding phylogeny or have one estimated from the alignment. After processing, users can visualize alignments and conservation scores as genome browser tracks and download estimated tree models and raw scores for further analysis. Altogether, this resource makes key features of the PHAST package conveniently available to a broad audience. Availability and implementation PhastWeb is freely available on the web at http://compgen.cshl.edu/phastweb/. The website provides instructions as well as examples.
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