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geWorkbench version 1.7.0 was released on July 17, 2009. We recommend that all users upgrade to the latest version. The release notes and downloads can be obtained from https://gforge.nci.nih.gov/frs/?group_id=78, and further instructions can be found on the Download and Installation page of this Wiki.
geWorkbench (genomics Workbench) is a Java-based open-source platform for integrated genomics. Using a component architecture it allows individually developed plug-ins to be configured into complex bioinformatic applications. At present there are more than 50 available plug-ins supporting the visualization and analysis of gene expression and sequence data. Example use cases include:
- loading data from local or remote data sources.
- visualizing gene expression, molecular interaction networks, protein sequence and protein structure data in a variety of ways.
- providing access to client- and server-side computational analysis tools such as t-test analysis, hierarchical clustering, self organizing maps, regulatory neworks reconstruction, BLAST searches, pattern/motif discovery, etc.
- validating computational hypothesis through the integration of gene and pathway annotation information from curated sources as well as through Gene Ontology enrichment analysis.
geWorkbench is the Bioinformatics platform of MAGNet, the National Center for the Multi-scale Analysis of Genomic and Cellular Networks (one of the 7 National Centers for Biomedial Computing funded through the NIH Roadmap). Additionally, geWorkbench is supported by caBIG™, NCI's cancer Biomedical Informatics Grid initiative.
End-user and developer support for geWorkbench is provided through the caBIG™ Molecular Analysis Tools Knowledge Center, a component of the caBIG™ Enterprise Support Network.
