| 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 |