Difference between revisions of "ExpressionView"
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| − | ExpressionView is an R package that provides an interactive environment to explore biclusters identified in gene expression data. A sophisticated ordering algorithm is used to present the biclusters in a visually appealing layout | + | ExpressionView is an R package that provides an interactive environment to explore biclusters identified in gene expression data. A sophisticated ordering algorithm is used to present the biclusters in a visually appealing layout. From this overview, the user can select individual biclusters and access all the biologically relevant data associated with it. The package is aimed to facilitate the collaboration between bioinformaticians and life scientists who are not familiar with the R language. |
= Launch and download = | = Launch and download = | ||
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== Download the R package (includes the Flash applet)== | == Download the R package (includes the Flash applet)== | ||
| − | == Download the | + | == Download the stand-alone viewer (adobe AIR) == |
| + | If you prefer a stand-alone viewer, you can download and install the Adobe AIR build of ExpressionView: | ||
| + | [http://maya:7575/ExpressionView/air/ExpressionView.air ExpressionView.air]. Note that you first need to install the necessary runtime environment from [http://get.adobe.com/air]. | ||
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== Download some sample data == | == Download some sample data == | ||
* [[Media:Expressionview.sampledata.all.small.xml|Gene expression profile of adult T-cell acute lymphocytic leukemia (ALL) with 8 modules]] | * [[Media:Expressionview.sampledata.all.small.xml|Gene expression profile of adult T-cell acute lymphocytic leukemia (ALL) with 8 modules]] | ||
Revision as of 22:42, 17 November 2009
ExpressionView is an R package that provides an interactive environment to explore biclusters identified in gene expression data. A sophisticated ordering algorithm is used to present the biclusters in a visually appealing layout. From this overview, the user can select individual biclusters and access all the biologically relevant data associated with it. The package is aimed to facilitate the collaboration between bioinformaticians and life scientists who are not familiar with the R language.
Contents
Launch and download
Launch the ExpressionView Flash applet
- Launch ExpressionView
- Launch ExpressionView with ALL data (8 modules)
- Launch ExpressionView with ALL data (108 modules)
Download the R package (includes the Flash applet)
Download the stand-alone viewer (adobe AIR)
If you prefer a stand-alone viewer, you can download and install the Adobe AIR build of ExpressionView: ExpressionView.air. Note that you first need to install the necessary runtime environment from [1].
Download some sample data
- Gene expression profile of adult T-cell acute lymphocytic leukemia (ALL) with 8 modules
- Gene expression profile of adult T-cell acute lymphocytic leukemia (ALL) with 108 modules
Screenshots
Startup screen
Global view after loading dataset
Highlighting modules
Zoom functions
Highlighting genes (probes) and samples
GO and KEGG associations
Modules view emphasizing the underlying gene expression data
Global view without gene expression data
Experiment description
Tutorials
There are several tutorials describing how to use ExpressionView:
