NetStats: Network Statistics

In CoNI: Correlation Guided Network Integration (CoNI)

Description

This function calculates simple network statistics and returns them as a dataframe

Usage

NetStats(Network)

Arguments

Network

An Igraph network

Value

Returns a data.frame with nine rows with the following network statistics:

• "net_avg_pathL"Shortest paths between vertices

• "net_edge_density"Graph density, ratio of the number of edges and the number of possible edges

• "net_transitivity"Probability that the adjacent vertices of a vertex are connected

• "net_diameter"Length of the longest geodesic

• "net_nodes_first_path_diameter"The nodes along the first found path with the length of diameter

• "net_eigenvalue"The eigenvalue corresponding to the centrality scores.

• "net_centralized_betweenessIdx"The graph level centrality index after centralizing the graph according to the betweenness of vertices

• "net_centralized_closenessIdx"The graph level centrality index after centralizing the graph according to the closeness of vertices

• "net_centralized_degreeIdx"The graph level centrality index after centralizing the graph according to the degrees of vertices

For more information on the statistics consult the igraph package.

Examples

#Load color nodes table
data(MetColorTable)
#Assign colors according to "Class" column
MetColorTable<-assign_colorsAnnotation(MetColorTable)
#Load CoNI results
data(CoNIResultsHFDToy)

#Generate Network
HFDNetwork<-generate_network(ResultsCoNI = CoNIResultsHFDToy,
                             colorVertexNetwork = TRUE,
                             colorVertexTable = MetColorTable,
                             outputDir = "./",
                             outputFileName = "HFD",
                             saveFiles = FALSE)
NetStats(HFDNetwork)

CoNI documentation built on Sept. 30, 2021, 5:09 p.m.