assoScore |
Association scores for gene pairs |
Bakal2007 |
Rich morphological phenotypes for gene overexpression and RNA interference screens |
Bakal2007Cluster |
Rich morphological phenotypes for gene overexpression and RNA interference screens |
BetaMixture |
An S4 class for beta mixture modelling of functional gene associations |
BetaMixture-class |
An S4 class for beta mixture modelling of functional gene associations |
bm1 |
Rich morphological phenotypes for gene overexpression and RNA interference screens |
buildPAN |
Build an igraph or RedeR graph for PAN |
buildPAN-method |
Build an igraph or RedeR graph for PAN |
cosineDist |
Compute cosine similarities or distances between pairs of genes |
cosineSim |
Compute cosine similarities or distances between pairs of genes |
exportPAN |
Export inferred PAN or module graphs to files |
exportPAN-method |
Export inferred PAN or module graphs to files |
fitBM |
Fit a three-beta mixture model to densities of functional gene associations |
fitBM-method |
Fit a three-beta mixture model to densities of functional gene associations |
fitNULL |
Fit the NULL component of a three-beta mixture model for functional gene associations |
fitNULL-method |
Fit the NULL component of a three-beta mixture model for functional gene associations |
infer |
Infer a posterior association network |
infer-method |
Infer a posterior association network |
nodeColor |
Rich morphological phenotypes for gene overexpression and RNA interference screens |
p2SNR |
Translate p-values to Signal-to-Noise Ratios |
p2SNR-method |
Translate p-values to Signal-to-Noise Ratios |
PAN |
An S4 class for inferring a posterior association network |
PAN-class |
An S4 class for inferring a posterior association network |
pvclustModule |
Search enriched functional gene modules by pvclust |
pvclustModule-method |
Search enriched functional gene modules by pvclust |
sigModules |
Retrieve ids for significant gene modules searched by pvclust |
sigModules-method |
Retrieve ids for significant gene modules searched by pvclust |
SNR2p |
Translate p-values to Signal-to-Noise Ratios |
SNR2p-method |
Translate p-values to Signal-to-Noise Ratios |
summarize |
Summarize the object of S4 class 'BetaMixture' or 'PAN' |
summarize-method |
Summarize the object of S4 class 'BetaMixture' or 'PAN' |
view |
View the results of beta-mixture model fitting |
view-method |
View the results of beta-mixture model fitting |
viewLegend |
View the legends for the graph built for PAN |
viewLegend-method |
View the legends for the graph built for PAN |
viewNestedModules |
View the nested modules in a posterior association network in RedeR |
viewNestedModules-method |
View the nested modules in a posterior association network in RedeR |
viewPAN |
Show posterior association networks or modules in 'igraph' or 'RedeR' |
viewPAN-method |
Show posterior association networks or modules in 'igraph' or 'RedeR' |