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| − | '''geWorkbench''' 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 30 available [[Plugins|plug-ins]] supporting the visualization and analysis of gene expression and sequence data. | + | '''geWorkbench''' 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 30 available [[Plugins|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 and sequence 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 [http://magnet.c2b2.columbia.edu MAGNet], the '''National Center for the Multi-scale Analysis of Genomic and Cellular Networks''' (one of the [http://www.bisti.nih.gov/ncbc/index.cfm 7 National Centers for Biomedial Computing] funded through the [http://nihroadmap.nih.gov/ NIH Roadmap]). Many [[Magnet components|more components]] are scheduled for development in the context of the Center's activities. | geWorkbench is the Bioinformatics platform of [http://magnet.c2b2.columbia.edu MAGNet], the '''National Center for the Multi-scale Analysis of Genomic and Cellular Networks''' (one of the [http://www.bisti.nih.gov/ncbc/index.cfm 7 National Centers for Biomedial Computing] funded through the [http://nihroadmap.nih.gov/ NIH Roadmap]). Many [[Magnet components|more components]] are scheduled for development in the context of the Center's activities. | ||
geWorkbench builds on [http://amdec-bioinfo.cu-genome.org/html/caWorkBench3.htm caWorkbench], a project funded by the [http://www.cancer.gov/ National Cancer Institute (NCI)] and the [http://www.amdec.org/ Academic Medical Development Company (AMDeC)]. Additional information about the history of this effort can be found [http://caldev/workbench here]. | geWorkbench builds on [http://amdec-bioinfo.cu-genome.org/html/caWorkBench3.htm caWorkbench], a project funded by the [http://www.cancer.gov/ National Cancer Institute (NCI)] and the [http://www.amdec.org/ Academic Medical Development Company (AMDeC)]. Additional information about the history of this effort can be found [http://caldev/workbench here]. | ||
Revision as of 14:45, 6 February 2006
geWorkbench 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 30 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 and sequence 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). Many more components are scheduled for development in the context of the Center's activities.
geWorkbench builds on caWorkbench, a project funded by the National Cancer Institute (NCI) and the Academic Medical Development Company (AMDeC). Additional information about the history of this effort can be found here.
