AN.test |
Performs the Adaptive Neyman test of Fan and Lin (1998) |
annLoi2008 |
Annotation data used in the DEGraph package vignette |
BS.test |
Performs the test of Bai and Saranadasa (1996) |
classLoi2008 |
Tamoxifen treatment resistance status data used in the DEGraph package vignette |
exprLoi2008 |
Gene expression data used in the DEGraph package vignette |
getConnectedComponentList |
Given a graph, returns a list of its connected components (which are also graph objects), ordered by decreasing number of nodes |
getKEGGPathways |
Builds a graph for each of the KEGG pathways |
getSignedGraph |
Given a graph, builds a signed version of the adjacency matrix taking into account the type of interaction (e.g., activation or inhibition) |
graph.T2.test |
Performs the Hotelling T2 test in Fourier space |
grListKEGG |
KEGG networks used in the DEGraph package vignette |
hyper.test |
Performs an hypergeometric test of enrichment of a set of hypotheses in significant elements |
is.NCIgraph |
Assess whether a graph is a NCI graph |
laplacianFromA |
Calculates the Laplacian associated to an adjacency matrix |
plotValuedGraph |
Plots a graph with nodes colored according to a quantitative variable |
randomWAMGraph |
Generates a random graph |
testOneConnectedComponent |
Applies a series of two-sample tests to a connected graph using various statistics |
testOneGraph |
Applies a serie of two-sample tests to each connected component of a graph using various statistics |
twoSampleFromGraph |
Given a basis (typically the eigenvectors of a graph Laplacian), builds two multivariate normal samples with mean shift located in the first elements of the basis |
writeAdjacencyMatrix2KGML |
Writes an adjacency matrix into an XML file |