adj2ig: Create an 'igraph' object from weighted adjacency matrix

In kevinmcgregor/mdine: Microbiome Differential Network Estimation

Description

Create an igraph object from weighted adjacency matrix

Usage

adj2ig(w.adj, v.col = NULL, e.col = NULL)

Arguments

w.adj	The weighted adjacency matrix to be converted to an igraph object
v.col	The vertex colours. Numeric vector of length equal to number of taxa in network.
e.col	The edge colours. Numeric vector of length equal to number of taxa in network. If NULL, then colour green/red based on positive/negative weights.

Value

An object of class igraph corresponding to the provided adjacency matrix

Examples

library(mdine)
data(crohns)

X <- model.matrix(~disease, data=crohns$covars)
md.fit <- mdine(Y=crohns$otu.counts, X=X, Z=X[,2], mc.cores=1, iter=100)
adj <- ci2adj(md.fit, weighted = TRUE)

ig0 <- adj2ig(adj$adj0)
igraph::plot.igraph(ig0)

kevinmcgregor/mdine documentation built on April 10, 2021, 4:18 a.m.