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

## Documentation for package ‘attract’ version 1.42.0

- DESCRIPTION file.
- User guides, package vignettes and other documentation.
- Package NEWS.

## Help Pages

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
buildCustomIncidenceMatrix | This function builds an incidence matrix for custom gene sets.
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
filterDataSet | This function filters our lowly expressed genes in RNAseq 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 M?ller 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 M?ller et al.
SynExpressionSet | Class SynExpressionSet
SynExpressionSet-class | Class SynExpressionSet