Difference between revisions of "Plugins"
(→‎Microarray Visualization)
Line 10: Line 10:
 
|-
 
|-
  
−
|caBIO Pathways||Displays BioCarta pathway diagrams for selected genes.||Verified to work on 3.0
+
|caBIO Pathways||Displays BioCarta pathway diagrams for selected genes.||TBD
 +
|-
 +
|Dendrogram||A tree-structured diagrams reflecting the results of hierarchical clustering analysis.||TBD
 +
|-
 +
|Expression Profiles||Displays the expression of genes across several arrays/ hybridizations.||TBD
 +
|-
 +
|-
 +
 
 +
|Image Viewer||Mechanism to display snapshot images taken in the application.||TBD
 +
|-
 +
|-
 +
 
 +
|Marker Annotations||Allows users to retrieve and display CGAP annotations for genes within a marker panel.||TBD
 +
|-
 +
|-
 +
 
 +
|Microarray Panel||The image displays color-coded levels of gene expression,using a color scale varying gradually from red (up-regulated) through black (no change) to green (down-regulated).|| TBD
 +
|-
 
|-
 
|-
−
 
  
−
Dendrogram Displays tree-structured diagrams (dendrograms) reflecting the results of hierarchical clustering analysis.
+
|SOM Clusters ||Displays the results of self-organizing map cluster analysis.||TBD
−
Expression Profiles Displays the expression of genes across several arrays/ hybridizations.
+
|-
−
Image Viewer Displays snapshot images taken from whole screen views.
+
|-
−
Marker Annotations Allows users to retrieve and display CGAP annotations for genes within a marker panel.
 
−
Microarray Panel Displays expression measurements as spots over a red-green color spectrum.
 
−
SOM Clusters Displays the results of self-organizing map cluster analysis.
 
−
Tabular Microarray Panel Presents the numerical values of the expression measurements in a table format; each row represents an individual probe and the columns display the signal and background intensities and intensity ratios
 
  
 +
|Tabular Microarray Panel||Presents the numerical values of the expression measurements in a table format; each row represents an individual probe and the columns display the signal and background intensities and intensity ratios.||
 +
TBD
 +
|-
  
 
==Normalizer==
 
==Normalizer==

Revision as of 13:31, 30 January 2006

Plugins are sets of pluggable components for geWorkbench.

Below is the list of available plugins.

Microarray Visualization

Normalizer

Plugin Description Compatibility
Color Mosaic Displays heat maps for microarray expression data, organized by phenotypic or gene groupings. Verified to work on 3.0
caBIO Pathways Displays BioCarta pathway diagrams for selected genes. TBD
Dendrogram A tree-structured diagrams reflecting the results of hierarchical clustering analysis. TBD
Expression Profiles Displays the expression of genes across several arrays/ hybridizations. TBD
Image Viewer Mechanism to display snapshot images taken in the application. TBD
Marker Annotations Allows users to retrieve and display CGAP annotations for genes within a marker panel. TBD
Microarray Panel The image displays color-coded levels of gene expression,using a color scale varying gradually from red (up-regulated) through black (no change) to green (down-regulated). TBD
SOM Clusters Displays the results of self-organizing map cluster analysis. TBD
Tabular Microarray Panel Presents the numerical values of the expression measurements in a table format; each row represents an individual probe and the columns display the signal and background intensities and intensity ratios.

TBD

Plugin Description Compatibility
Color Mosaic Displays heat maps for microarray expression data, organized by phenotypic or gene groupings. Verified to work on 3.0
Clustering Contains analysis components to perform hierarchical clustering self-organizing maps clustering on microarray expression data. Verified to work on 3.0
caScript A scripting language engine for geWorkbench. Not yet verified.

Annoatation

Network Generation

Plugin Description Compatibility
Color Mosaic Displays heat maps for microarray expression data, organized by phenotypic or gene groupings. Verified to work on 3.0

Analysis

Plugin Description Compatibility
Color Mosaic Displays heat maps for microarray expression data, organized by phenotypic or gene groupings. Verified to work on 3.0
Plugin Description Compatibility
Color Mosaic Displays heat maps for microarray expression data, organized by phenotypic or gene groupings. Verified to work on 3.0
Retrieved from "http://wiki.c2b2.columbia.edu/workbench/index.php?title=Plugins&oldid=1701"