PhastWeb: a web interface for evolutionary conservation scoring of multiple sequence alignments using phastCons and phyloP.
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- Record sourced from PubMed, PMID 30481262.
- Also identified by DOI 10.1093/bioinformatics/bty966 and PMC identifier 6596881.
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Abstract
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. PhastWeb is freely available on the web at http://compgen.cshl.edu/phastweb/. The website provides instructions as well as examples.
Medical subject headings
- Genomics
- Software