General Information
| Description | Software for predicting and visualizing orthology/paralogy relationships among genomes |
| Homepage | http://cbb.pnnl.gov/portal/software/spocs.html |
Publications
SPOCS: software for predicting and visualizing orthology/paralogy relationships among genomes
Summary:
At the rate that prokaryotic genomes can now be generated, comparative genomics studies require a flexible method for quickly and accurately predicting orthologs among the rapidly changing set of genomes available. SPOCS implements a graph-based ortholog prediction method to generate a simple tab-delimited table of orthologs and in addition, html files that provide a visualization of the predicted ortholog/paralog relationships to which gene/protein expression metadata may be overlaid.
Availability and Implementation:
A SPOCS web application is freely available at http://cbb.pnnl.gov/portal/tools/spocs.html. Source code for Linux systems is also freely available under an open source license at http://cbb.pnnl.gov/portal/software/spocs.html; the Boost C++ libraries and BLAST are required.
Contact:
leeann.mccue@pnnl.gov
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