plotModuleWeb {bipartite}

plotModuleWeb

Description

This function takes an object of class moduleWeb and plots the modules found by function computeModules(...) onto the graph.

Usage

plotModuleWeb(moduleWebObject, plotModules = TRUE, 
rank = FALSE, weighted = TRUE, displayAlabels = TRUE, 
displayBlabels = TRUE, labsize = 1, xlabel = "", ylabel = "", 
square.border = "white", fromDepth = 0, upToDepth = -1)

Arguments

moduleWebObject

An object of class "moduleWeb".

plotModules

If plotModules is true, modules are plotted onto the graph, otherwise only the graph itself is plotted.

rank

logical; if true, rows will be standardised for plotting, yielding a range from light to dark blue for each row; if false, values are ranged across the entire matrix. The latter is more faithful to the data, while the former makes lower levels more comparable, irrespective of marginal totals.

weighted

If weighted is true, the intensity of squares representing the edges corresponds with the edge weight, otherwise all squares representing existing edges have equal intensity.

displayAlabels

Row labels are plotted, iff displayAlabels is true.

displayBlabels

Column labels are plotted, iff displayBlabels is true.

labsize

labsize is the scalar factor with which the size of the plot labels can be changed.

xlabel

xlabel is the label for the x-axis.

ylabel

ylabel is the label for the y-axis.

square.border

Background color of area with squares.

fromDepth

Minimal depth of modules which should be plotted.

upToDepth

Maximal depth of modules which should be plotted. If upToDepth is smaller then fromDepth, all modules are plotted.

Value

A plot window with appropriate size according to the dimensions of the web.

Author(s)

Rouven Strauss

See Also

See also function visweb.

Examples

## Not run: 
data(small1976)

moduleWebObject = computeModules(small1976);
plotModuleWeb(moduleWebObject);

## End(Not run)