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SetRank (version 1.0.1)
Advanced Gene Set Enrichment Analysis
Description
Implements an algorithm to conduct advanced gene set enrichment analysis on the results of genomics experiments.
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Version
1.1.0
1.0.1
1.0.0
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Install
install.packages('SetRank')
Monthly Downloads
34
Version
1.0.1
License
GPL-3
Maintainer
Cedric Simillion
Last Published
December 9th, 2015
Functions in SetRank (1.0.1)
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styleXML
VizMap XML template
exportGeneNets
Create gene interaction networks for all significant gene sets.
generateContinuousMapping
Generates a continuous VizMap property mapping.
setRankAnalysis
Advanced gene set enrichment analysis.
generatePMapping
Generates a visual property mapping for p-value attributes
buildSetCollection
Create a gene set collection
createCytoscapeVizMap
Create a Cytoscape visual style for one or more SetRank networks.
propertyFunctions
Attribute handlers for generating the VizMap XML
createPathwayTable
Creates a table of all significant pathways in different conditions.
createIDConverter
Create a function to convert gene or protein IDs
cytoscapeExport
Prepare networks for visualization in Cytoscape
exportMultipleResults
Export multiple SetRank networks and accompanying tables.
exportSingleResult
Export a SetRank network and accompanying tables.
membershipTable
Create a gene set membership table.
fixGraphML
Fix the igraph graphML export