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Title: SPOCS: Software for Predicting and Visualizing Orthology/Paralogy Relationships Among Genomes

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 Source code for Linux systems is also freely available under an open source license at; the Boost C++ libraries and BLAST are required.
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Publication Date:
OSTI Identifier:
Report Number(s):
KP1601040; KP1601010
DOE Contract Number:
Resource Type:
Journal Article
Resource Relation:
Journal Name: Bioinformatics, 29(20):2641-2642
Research Org:
Pacific Northwest National Laboratory (PNNL), Richland, WA (US)
Sponsoring Org:
Country of Publication:
United States
ortholog; comparative genomics