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| * ''Current (updated 10/14/10)'' | === Current Version === Updated 10/14/10 |
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| * [[attachment:WordCloudPlugin_v1.0RC1.zip]] | * [[attachment:WordCloudPlugin_v1.0RC1.zip]] |
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| * Historical * Updated 9/12/2010 * [[attachment:WordCloudPlugin_v1.0beta.zip]] * Updated 7/20/2010 * [[attachment:SemanticNetworkSummary_v0.5.zip]] (The name of the plugin was previously `SemanticNetworkSummary`) |
=== Previous Versions === Updated 9/12/2010 * [[attachment:WordCloudPlugin_v1.0beta.zip]] Updated 7/20/2010 * [[attachment:SemanticNetworkSummary_v0.5.zip]] (The name of the plugin was previously `SemanticNetworkSummary`) |
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| [[attachment:AlzheimerEM.cys]] | * gene/protein interaction networks * DNA Replication yeast: * gene-set networks (see [[Software/EnrichmentMap/Description|Enrichment map]]) * Gene-sets enriched in Alzheimer: [[attachment:AlzheimerEM.cys]] |
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| == Tutorials == |
WordCloud Plugin Download Page
Brief Description
The WordCloud Plugin is a Cytoscape plugin that generates a word tag cloud from a user-defined node selection, summarizing an attribute of choice. For instance, if selected nodes are proteins, and the string attribute "full protein name" is selected, every string will be broken down into words, which will be plotted on a panel with size proportional to their frequency.
It is also possible to use the plugin to cluster words that appear together in the selected nodes. For instance, if node A has name attribute "Origin Recognition Complex 1" and node B has name attribute "Origin Recognition Complex 2", then the words "Origin", "Recognition" and "Complex" will be clustered together, following the order in which they appear. The plugin operates on any network and on any selected attributes, although it has been specifically designed for string attributes such as gene names or gene ontology annotations.
Plugin Download
Current Version
Updated 10/14/10
Previous Versions
Updated 9/12/2010
Updated 7/20/2010
SemanticNetworkSummary_v0.5.zip (The name of the plugin was previously SemanticNetworkSummary)
Sample Data Download
- gene/protein interaction networks
- DNA Replication yeast:
gene-set networks (see Enrichment map)
Gene-sets enriched in Alzheimer: AlzheimerEM.cys
Tutorials
Guided tutorial on the basic functioning of the WordCloud plugin.
Parameter tutorial on using all of the parameters available for the WordCloud plugin.
User Guide