| geecc-package | Gene set enrichment for two or three categories |
| concub-class | Class '"concub"' |
| concubfilter-class | Class '"concubfilter"' |
| drop.insignif.layer | Class '"concubfilter"' |
| drop.insignif.layer-method | Class '"concubfilter"' |
| drop.insignif.layer<- | Class '"concubfilter"' |
| drop.insignif.layer<--method | Class '"concubfilter"' |
| drop.lowl2or.layer | Class '"concubfilter"' |
| drop.lowl2or.layer-method | Class '"concubfilter"' |
| drop.lowl2or.layer<- | Class '"concubfilter"' |
| drop.lowl2or.layer<--method | Class '"concubfilter"' |
| drop.wrongdir.layer | Class '"concubfilter"' |
| drop.wrongdir.layer-method | Class '"concubfilter"' |
| drop.wrongdir.layer<- | Class '"concubfilter"' |
| drop.wrongdir.layer<--method | Class '"concubfilter"' |
| filterConCub | Filter results from two- or three-way tests |
| geecc | Gene set enrichment for two or three categories |
| getTable | Class '"concub"' |
| getTable-method | Class '"concub"' |
| GO2level | Filter GO and KEGG database |
| GO2list | Filter GO and KEGG database |
| GO2offspring | Filter GO and KEGG database |
| initialize-method | Class '"concub"' |
| initialize-method | Class '"concubfilter"' |
| intersectPresort | Optimized operations of sets of character-vectors |
| KEGG2list | Filter GO and KEGG database |
| marioni | Affymetrix microarray gene expression data |
| minimum.l2or | Class '"concubfilter"' |
| minimum.l2or-method | Class '"concubfilter"' |
| minimum.l2or<- | Class '"concubfilter"' |
| minimum.l2or<--method | Class '"concubfilter"' |
| p.value | Class '"concubfilter"' |
| p.value-method | Class '"concubfilter"' |
| p.value<- | Class '"concubfilter"' |
| p.value<--method | Class '"concubfilter"' |
| plotConCub | Generate a heatmap showing log2 odds ratios and P-values. |
| pval2star | Transform P-values to stars |
| runConCub | Enrichment analysis on two- or three-way contingency tables. |
| setdiffPresort | Optimized operations of sets of character-vectors |
| show-method | Class '"concub"' |
| show-method | Class '"concubfilter"' |
| skip.min.group | Class '"concubfilter"' |
| skip.min.group-method | Class '"concubfilter"' |
| skip.min.group<- | Class '"concubfilter"' |
| skip.min.group<--method | Class '"concubfilter"' |
| skip.min.obs | Class '"concubfilter"' |
| skip.min.obs-method | Class '"concubfilter"' |
| skip.min.obs<- | Class '"concubfilter"' |
| skip.min.obs<--method | Class '"concubfilter"' |
| skip.zeroobs | Class '"concubfilter"' |
| skip.zeroobs-method | Class '"concubfilter"' |
| skip.zeroobs<- | Class '"concubfilter"' |
| skip.zeroobs<--method | Class '"concubfilter"' |
| sortAscii | Optimized operations of sets of character-vectors |
| test.direction | Class '"concubfilter"' |
| test.direction-method | Class '"concubfilter"' |
| test.direction<- | Class '"concubfilter"' |
| test.direction<--method | Class '"concubfilter"' |