Methods to Find the Gene Expression Modules that Represent the Drivers of Kauffman's Attractor Landscape


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Documentation for package ‘attract’ version 1.4.0

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attract-package Methods to find the Gene Expression Modules that Represent the Drivers of Kauffman's Attractor Landscape
attract Methods to find the Gene Expression Modules that Represent the Drivers of Kauffman's Attractor Landscape
AttractorModuleSet Class AttractorModuleSet
AttractorModuleSet-class Class AttractorModuleSet
calcFuncSynexprs Functional enrichmental analysis for a set of synexpression groups.
calcInform Function calculates the informativeness metric (average MSS) for a set of cluster assignments.
calcModfstat Function calculates a modified F-statistic for a set of cluster assignments.
calcRss Function calculates the average RSS for a set of cluster assignments.
exprs.dat Gene Expression Matrix of Published Data
findAttractors Infers the set of cell-lineage specific gene expression modules using GSEAlm and KEGG.
findCorrPartners Determines Genes with Highly Correlated Expression Profiles to a Synexpression Group
findSynexprs This function finds the synexpression groups present within a core attractor pathway module.
loring.eset An ExpressionSet Object containing published data from Müller et al.
plotsynexprs Visualizing the Average Expression Profile of a Synexpression Group.
removeFlatGenes Flags a set of genes which demonstrates little variation across the celltypes or experimental groups of interest.
samp.info samp.info Contains the Sample Information for the Mueller data set.
subset.loring.eset An ExpressionSet Object containing published data from Müller et al.
SynExpressionSet Class SynExpressionSet
SynExpressionSet-class Class SynExpressionSet