alias,gt.object-method |
Class "gt.object" for storing the result of the function gt |
alias<- |
Class "gt.object" for storing the result of the function gt |
alias<-,gt.object-method |
Class "gt.object" for storing the result of the function gt |
annotation.vandeVijver |
Some selected annotations for the breast cancer data from Rosetta Inpharmatics LLC and
Netherlands Cancer Institute, to serve as example data in the globaltest package. (Deprecated) |
checkerboard |
Checkerboard plot for Global Test (Deprecated) |
coefficients,mlogit-method |
Multinomial Logistic Regression |
combine,gt.result,gt.result-method |
Class "gt.result" for results of the function globaltest (Deprecated) |
comparative |
Comparative proportions for the Global Test |
covariates |
Global Test diagnostic plots |
diagnostics |
Global Test diagnostic plots |
draw |
Multiple testing correction for the Global Test |
features |
Global Test diagnostic plots |
findFocus |
Multiple testing correction for the Global Test |
fit |
Class "gt.result" for results of the function globaltest (Deprecated) |
fit,gt.result-method |
Class "gt.result" for results of the function globaltest (Deprecated) |
fitted.values,mlogit-method |
Multinomial Logistic Regression |
focusLevel |
Multiple testing correction for the Global Test |
geneplot |
Gene Plot for Global Test (Deprecated) |
genesets |
Class "gt.result" for results of the function globaltest (Deprecated) |
genesets,GOstructure-method |
Class "GOstructure" (Deprecated) |
getFocus |
Multiple testing on the GO graph (Deprecated) |
globaltest |
Global Test (Deprecated) |
GOstructure |
Class "GOstructure" (Deprecated) |
GOstructure-class |
Class "GOstructure" (Deprecated) |
gt |
Global Test (new implementation, 2009) |
gt.barplot |
Class "gt.barplot" for results of the functions geneplot and sampleplot (Deprecated) |
gt.barplot-class |
Class "gt.barplot" for results of the functions geneplot and sampleplot (Deprecated) |
gt.multtest |
Correct globaltest results for multiple testing (Deprecated) |
gt.object |
Class "gt.object" for storing the result of the function gt |
gt.object-class |
Class "gt.object" for storing the result of the function gt |
gt.options |
Options for globaltest package |
gt.result |
Class "gt.result" for results of the function globaltest (Deprecated) |
gt.result-class |
Class "gt.result" for results of the function globaltest (Deprecated) |
gtBroad |
Gene set testing of gene set databases using Global Test |
gtGO |
Gene set testing of gene set databases using Global Test |
gtKEGG |
Gene set testing of gene set databases using Global Test |
hist,gt.object-method |
Class "gt.object" for storing the result of the function gt |
hist,gt.result-method |
Class "gt.result" for results of the function globaltest (Deprecated) |
inheritance |
Multiple testing correction for the Global Test |
leafNodes |
Multiple testing correction for the Global Test |
length,GOstructure-method |
Class "GOstructure" (Deprecated) |
length,gt.barplot-method |
Class "gt.barplot" for results of the functions geneplot and sampleplot (Deprecated) |
length,gt.object-method |
Class "gt.object" for storing the result of the function gt |
length,gt.result-method |
Class "gt.result" for results of the function globaltest (Deprecated) |
makeGOstructure |
Multiple testing on the GO graph (Deprecated) |
mlogit |
Multinomial Logistic Regression |
mlogit-class |
Multinomial Logistic Regression |
model.matrix,gt.object-method |
Class "gt.object" for storing the result of the function gt |
names,gt.barplot-method |
Class "gt.barplot" for results of the functions geneplot and sampleplot (Deprecated) |
names,gt.object-method |
Class "gt.object" for storing the result of the function gt |
names,gt.result-method |
Class "gt.result" for results of the function globaltest (Deprecated) |
names<-,gt.barplot-method |
Class "gt.barplot" for results of the functions geneplot and sampleplot (Deprecated) |
names<-,gt.object-method |
Class "gt.object" for storing the result of the function gt |
names<-,gt.result-method |
Class "gt.result" for results of the function globaltest (Deprecated) |
p.adjust,gt.object-method |
Class "gt.object" for storing the result of the function gt |
p.value |
Class "gt.object" for storing the result of the function gt |
p.value,gt.object-method |
Class "gt.object" for storing the result of the function gt |
p.value,gt.result-method |
Class "gt.result" for results of the function globaltest (Deprecated) |
permutations |
Permutations version of the Global Test (Deprecated) |
plot,gt.barplot-method |
Class "gt.barplot" for results of the functions geneplot and sampleplot (Deprecated) |
regressionplot |
Regression Plot for Global Test (Deprecated) |
residuals,mlogit-method |
Multinomial Logistic Regression |
result |
Class "gt.object" for storing the result of the function gt |
result,gt.barplot-method |
Class "gt.barplot" for results of the functions geneplot and sampleplot (Deprecated) |
result,gt.object-method |
Class "gt.object" for storing the result of the function gt |
result,gt.result-method |
Class "gt.result" for results of the function globaltest (Deprecated) |
sampleplot |
Sample Plot for Global Test (Deprecated) |
sampling |
Sampling random 'pathways' for the Global Test |
scale,gt.barplot-method |
Class "gt.barplot" for results of the functions geneplot and sampleplot (Deprecated) |
show,GOstructure-method |
Class "GOstructure" (Deprecated) |
show,gt.barplot-method |
Class "gt.barplot" for results of the functions geneplot and sampleplot (Deprecated) |
show,gt.object-method |
Class "gt.object" for storing the result of the function gt |
show,gt.result-method |
Class "gt.result" for results of the function globaltest (Deprecated) |
show,mlogit-method |
Multinomial Logistic Regression |
size |
Class "gt.object" for storing the result of the function gt |
size,gt.object-method |
Class "gt.object" for storing the result of the function gt |
size,gt.result-method |
Class "gt.result" for results of the function globaltest (Deprecated) |
sort,gt.barplot-method |
Class "gt.barplot" for results of the functions geneplot and sampleplot (Deprecated) |
sort,gt.object-method |
Class "gt.object" for storing the result of the function gt |
sort,gt.result-method |
Class "gt.result" for results of the function globaltest (Deprecated) |
subjects |
Global Test diagnostic plots |
subsets |
Class "gt.object" for storing the result of the function gt |
subsets,gt.object-method |
Class "gt.object" for storing the result of the function gt |
summary,gt.object-method |
Class "gt.object" for storing the result of the function gt |
summary,mlogit-method |
Multinomial Logistic Regression |
vandeVijver |
A subset of the Breast cancer data from Rosetta Inpharmatics LLC and
Netherlands Cancer Institute. (Deprecated) |
weights,gt.object-method |
Class "gt.object" for storing the result of the function gt |
z.score |
Class "gt.barplot" for results of the functions geneplot and sampleplot (Deprecated) |
z.score,gt.barplot-method |
Class "gt.barplot" for results of the functions geneplot and sampleplot (Deprecated) |
z.score,gt.object-method |
Class "gt.object" for storing the result of the function gt |
z.score,gt.result-method |
Class "gt.result" for results of the function globaltest (Deprecated) |
[,gt.barplot-method |
Class "gt.barplot" for results of the functions geneplot and sampleplot (Deprecated) |
[,gt.object-method |
Class "gt.object" for storing the result of the function gt |
[,gt.result-method |
Class "gt.result" for results of the function globaltest (Deprecated) |
[[,gt.object-method |
Class "gt.object" for storing the result of the function gt |