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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

Install

install.packages('SetRank')

Monthly Downloads

20

Version

1.0.1

License

GPL-3

Maintainer

Cedric Simillion

Last Published

December 9th, 2015

Functions in SetRank (1.0.1)

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