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"' |
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. |
runConCub | Enrichment analysis on two- or three-way contingency tables. |
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"' |
test.direction | Class '"concubfilter"' |
test.direction-method | Class '"concubfilter"' |
test.direction<- | Class '"concubfilter"' |
test.direction<--method | Class '"concubfilter"' |