degree_calc_f: Calculate and store degree, betweenness, and closeness scores...
In ConesaLab/MDM: Complete MDM Network Analysis for 16S rRNA Data

Description Usage Arguments Value Examples

Calculate degree, betweenness, and closeness scores for each node in network (igraph) and store results in dataframe. Nodes are represented by row. Each column represents a separate network centrality measure.

1	degree_calc_f(orig_graph)

orig_graph

Graph object of taxa co-occurrence relationships

Returns dataframe of degree, betweenness, and closeness scores for all nodes in network

##---- Should be DIRECTLY executable !! ----
##-- ==>  Define data, use random,
##--	or do  help(data=index)  for the standard data sets.

## The function is currently defined as
function (orig_graph)
{
    degree_df <- as.data.frame(igraph::degree(orig_graph))
    degree_df$names <- rownames(degree_df)
    colnames(degree_df)[1] = "degree"
    degree_df$bw <- as.vector(igraph::betweenness(orig_graph))
    degree_df$closeness <- as.vector(igraph::closeness(orig_graph))
    print(head(degree_df))
    return(degree_df)
  }