Graph Theoretic Association Tests

Documentation for package ‘GraphAT’ version 1.16.0

causton	Yeast mRNA Expression Data
ccCM	Cell-Cycle Cluster Matrix
clust2Mat	Function to compute adjacency matrix of cluster graph given a vector of cluster memberships
depthmatBP	Matrices of depth of association for pairs of YEAST genes with respect to each of the BP,CC and MF ontologies of the GO database
depthmatCC	Matrices of depth of association for pairs of YEAST genes with respect to each of the BP,CC and MF ontologies of the GO database
depthmatMF	Matrices of depth of association for pairs of YEAST genes with respect to each of the BP,CC and MF ontologies of the GO database
getpvalue	Function to obtain P values from the Edge permutation and Node permutation tests respectively
giaever	Yeast Gene-Knockout Fitness Data
makeClustM	Make an adjacency matrix for a cluster graph
mat2UndirG	Change graph representations
mRNAclusters	Yeast mRNA Expression Data Cluster Memberships
nNamescc	Cell-Cycle Cluster Matrix
permEdgesM2M	Randomly permute edges or node labels in a graph
permNodesM2M	Randomly permute edges or node labels in a graph
permPower	Function to compute estimated probability of detecting preferential connection of intracluster nodes
Phenoclusters	Yeast Gene-Knockout Fitness Data Cluster Memberships