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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 plug-in [[components]] supporting the visualization and analysis of gene expression and sequence data. Many [http://caldev/workbench more components are scheduled for development] in the context of [http://magnet.c2b2.columbia.edu MAGNet], the National Center for Biomedical Computing hosted at Columbia University.
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__NOTOC__
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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].
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[[Image:geworkbench_banner.png]]
  
[[Getting Started]]
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{|  class="wikitable" style="background-color:#F8EDD6;" cellpadding="10" width="700px"
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|colspan="2"|
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<h2>Overview</h2>
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'''geWorkbench''' (<u>ge</u>nomics <u>Workbench</u>) 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 70 available [[Plugins|plug-ins]] supporting the visualization and analysis of gene expression and sequence data. Example use cases include: <toggledisplay status="hide">
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* loading data from local or remote data sources.
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* visualizing gene expression, molecular interaction networks, protein sequence and protein structure data in a variety of ways.
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* 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.
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* validating computational hypothesis through the integration of gene and pathway annotation information from curated sources as well as through Gene Ontology enrichment analysis.
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<br/>
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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.ncbcs.org 7 National Centers for Biomedial Computing] funded through the [http://nihroadmap.nih.gov/ NIH Common Fund]).
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In the past, geWorkbench has received support from [https://cabig.nci.nih.gov/ caBIG<sup>&reg;</sup>, NCI's cancer Biomedical Informatics Grid initiative].
  
[[Samples]]
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<br/>
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End-user and developer support for geWorkbench is provided through the caBIG<sup>&reg;</sup> [https://cabig-kc.nci.nih.gov/Molecular/KC/index.php/Main_Page Molecular Analysis Tools Knowledge Center], a component of the caBIG<sup>&reg;</sup> [https://cabig.nci.nih.gov/esn/ Enterprise Support Network].
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|-
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<h2>Quick Start</h2>
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Please see the [[QuickStart| Quick Start]] guide to geWorkbench to see how to get started using geWorkbench right away.
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<h2>Current Release</h2>
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The latest production version of geWorkbench (v2.6.0.3) was released on December 21, 2016.
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* [[Release_Descriptions#Brief_overview_of_changes_in_geWorkbench_release_2.6.0|See changes included in latest release]].
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* [[Release_Descriptions|See history of past releases]].
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* [[Download_and_Installation|Download geWorkbench]].
  
[[Release History]]
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|-
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<h2>Web-enabled Version</h2>
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[[GeWorkbench-web/Overview|'''geWorkbench-web''']] provides installation-free access to the geWorkbench plug-ins through a pure browser interface. You can create and account and access the application at: http://geworkbench.c2b2.columbia.edu/geworkbench/.
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Latest revision as of 16:47, 2 March 2022


Geworkbench banner.png

Overview

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 70 available plug-ins supporting the visualization and analysis of gene expression and sequence data. Example use cases include: [show details]

Quick Start

Please see the Quick Start guide to geWorkbench to see how to get started using geWorkbench right away.

Current Release

The latest production version of geWorkbench (v2.6.0.3) was released on December 21, 2016.

Web-enabled Version

geWorkbench-web provides installation-free access to the geWorkbench plug-ins through a pure browser interface. You can create and account and access the application at: http://geworkbench.c2b2.columbia.edu/geworkbench/.