GeWorkbench-web/ANOVA - Revision history

Smith: moved GeWorkbench Web/ANOVA to GeWorkbench-web/ANOVA

2015-04-27T17:39:04Z

2015-04-27T17:34:50Z

2015-04-27T17:24:22Z

2015-03-27T22:31:25Z

2015-03-18T18:49:46Z

2015-03-18T18:39:04Z

‎Example of running ANOVA

2015-03-18T18:22:55Z

‎Search

2015-03-12T20:46:39Z

‎Selecting Case and Control Arrays

2015-03-12T20:46:23Z

‎Selecting Case and Control Arrays

2015-03-12T20:40:33Z

Undo revision 12923 by Smith (talk)

← Older revision		Revision as of 22:31, 27 March 2015
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−	{{~~TutorialsTopNav~~}}	+	{{Template:GeWorkbench-webTutorialsTopNav}}

	=Overview=		=Overview=

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 ==Prerequisites==
 * At least three array sets must already be defined in the Array Sets/Phenotypes list under "Set View".
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-=Working with and Viewing ANOVA Results=
 ==Significant markers set==
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 [[Image:ANOVA_web_sig_genes_entry.png]]
 ==The ANOVA result node in the Workspace==
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 * Complete list of all markers analyzed.
 =References=

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 =Example of running ANOVA=
-This example uses the [[Media:Bcell-100.zip|Bcell-100.zip]] dataset available and described in the geWorkbench [[Tutorial_Data]] area.  Briefly, this dataset is composed of 100 Affymetrix HG-U95Av2 arrays on which various B-cell lines, both normal and cancerous, were analyzed.  Thus it explores a potentially wide variety of expression phenotypes.
+==Preparation==
 ==Loading and preparing the example data==
-# Load the Bcell-100.exp dataset into geWorkbench as type "Expression File (.exp)".
+# Load the Bcell-100_log2.exp dataset into geWorkbench as type "Expression File (.exp)".
-# Load/associate the Affymetrix HG-U95Av2 annotation file if desired.
+# Load/associate the Affymetrix HG-U95Av2 annotation file if desired.  A copy is preloaded into geWorkbench-web and can be associated with the data file during the upload process.
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 ===Choosing array groups===
-The Bcell-100 dataset comes with predefined sets of arrays.
+The Bcell-100_log2.exp dataset comes with predefined sets of arrays.
 # In the pulldown under "Array Contex", select the context "Class".

← Older revision		Revision as of 18:22, 18 March 2015
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−	Dynamically search for a marker name or gene symbol. The display updates as characters are entered in the search box.	+	Dynamically search for a marker name or gene symbol. The display updates as characters are entered in the search box. The table has been sorted on F-statistic by clicking on the column header.
−

	====Clear Search====		====Clear Search====

← Older revision		Revision as of 20:46, 12 March 2015
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	* '''Limit to selected markers (optional)''' - Selecting marker sets here allows the analysis to be limited to the markers in the union of the selected sets.		* '''Limit to selected markers (optional)''' - Selecting marker sets here allows the analysis to be limited to the markers in the union of the selected sets.
−

	* '''Array Context''' - If more than one context for array sets has been created, first choose the desired context. Each context can contain its own collection of array sets.		* '''Array Context''' - If more than one context for array sets has been created, first choose the desired context. Each context can contain its own collection of array sets.

← Older revision	Revision as of 17:39, 27 April 2015
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← Older revision	Revision as of 17:34, 27 April 2015
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← Older revision	Revision as of 17:24, 27 April 2015
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 ==Selecting Case and Control Arrays==
+* '''Marker Context''' - If more than one context for marker sets has been created, first choose the desired context.  Each context can contain its own collection of marker sets.
 ==ANOVA Parameters and Settings==