alpha1MR | Compute alpha weights |
alphaMLG | Compute alpha weights |
compute.fisher | Combine independent p-values using the Fisher method |
compute.normalInv | Combine independent p-values using the normal inversion method |
keggPathwayGraphs | Download and parse KEGG pathway data |
keggPathwayNames | Obtain KEGG pathway titles |
nodeWeights | Retrieve the node weights of a graph |
nodeWeights-method | Retrieve the node weights of a graph |
pDis | Primary dis-regulation: Pathway analysis approach based on the unexplained dis-regulation of genes |
pDisPathway-class | Class that encodes the result of pDis analysis for a single pathway |
pDisRes-class | Primary dis-regulation (pDis) result class |
pe | Pathway-Express: Pathway analysis of signaling pathways |
peEdgeRenderInfo | Extract edge render information from a 'pePathway-class' object |
peNodeRenderInfo | Extract node render information from a 'pePathway-class' object |
pePathway-class | Class that encodes the result of Pathway-Express for a single pathway |
peRes-class | Pathway-Express result class |
plot-method | Plot pathway level statistics |
plot-method | Plot Pathway-Express result |
setEdgeWeights | Set gene weights based on edge type |
setNodeWeights | Set node weights |
Summary-method | Summarize the results of a Pathway-Express analysis |
Summary-method | Summarize the results of a Pathway-Express analysis |
summary.pDisRes | Summarize the results of a primary dis-regulation (pDis) analysis |
summary.peRes | Summarize the results of a Pathway-Express analysis |