plotModuleGraph: Plot the graphical representation of a weighted adjacency...

In AEBilgrau/Bmisc: Biostatistical miscellaneous functions

Description

A function of for plotting the graphical representation of a weigted weighted adjacencey amatrix. Build for convenience and not for speed.

Usage

plotModuleGraph(amat, diff.exprs = NULL, labels = rownames(amat),
  vcol = "Black", ecol = "Black", layout = layout.circle, ...)

Arguments

amat	A numeric adjacency a matrix with values between 0 and 1.
diff.exprs	A numeric vector of lencth ncol(amat) giving the importance (e.g. evidence for differential expression) of the node/gene.
labels	The labels of the nodes.
vcol	The colors of the nodes. Default is black.
ecol	The colour of the edges. Default is black.
layout	A function providing the layout of the graph. See layout.
...	Aguments passed to plot.igraph.

Value

Invisibly returns the igraph-object and the layout in a list.

Author(s)

Anders Ellern Bilgrau <anders.ellern.bilgrau (at) gmail.com>

Examples

# Construct a random adjacency matrix
amat <- replicate(10, runif(10))
amat[upper.tri(amat)] <- amat[lower.tri(amat)]

# Plot the graph
plotModuleGraph(amat,
                labels = "",
                vcol = 1:10,
                diff.exprs = 3 + 3*runif(10))

AEBilgrau/Bmisc documentation built on May 5, 2019, 11:28 a.m.