scudoPlot: Plot scudoNetwork result

In Matteo-Ciciani/rScudo: Signature-based Clustering for Diagnostic Purposes

Plot scudoNetwork result

Description

A wrapper to plot.igraph and legend. Can be used to plot the result of scudoNetwork with a color legend.

Usage

scudoPlot(net, x = "bottomright", y = NULL, ...)

Arguments

net	an igraph object returned by scudoNetwork
x, y	the x and y coordinates to be used to position the legend. They can be specified by keyword or in any way which is accepted by xy.coords. See Details of legend
...	arguments to be passed to plot.igraph

Value

Returns NULL, invisibly.

Author(s)

Matteo Ciciani [e-mail], Thomas Cantore [e-mail]

See Also

scudoNetwork, plot.igraph

Examples

# generate dummy dataset, run scudoTrain and scudoNetwork
exprData <- data.frame(a = 11:20, b = 16:25,
    c = rev(1:10), d = c(1:2, rev(3:10)))
rownames(exprData) <- letters[11:20]
grps <- as.factor(c("G1", "G1", "G2", "G2"))
nTop <- 2
nBottom <- 3
res <- scudoTrain(exprData, grps, nTop, nBottom, foldChange = FALSE,
    featureSel = FALSE)
net <- scudoNetwork(res, N = 0.5)

# Plot with scudoPlot
scudoPlot(net)

Matteo-Ciciani/rScudo documentation built on Jan. 25, 2024, 8:55 p.m.