plotHeatmap: Plot heatmaps

In mariavica/mircomb: An R package for analyzing miRNA-mRNA interactions

Description

Plot heatmaps of the top "n" miRNAs or mRNAs from selected miRNA-mRNA pairs

Usage

plotHeatmap(obj, class, n = 50, col.color = 1, min.exp = NULL, main = NULL,
   pval.cutoff = NULL, grouping.col = NULL, grouping.row = NULL, 
  order = "pval", cex.lab = 0.75)

Arguments

obj	a corObject
class	"miRNA", "mRNA" or "both". When "both", the heatmap is a mixture of miRNAs and mRNAs.
n	number of items to plot.
col.color	character vector, column name or number which contains that will be used to label the samples.
min.exp	(optional) minimum mean expression of the items to be plotted
main	(optional) title of the plot
pval.cutoff	(optional) maximum adjusted pvalue
grouping.col	(optional) factor or character vector indicating predefined groups
grouping.row	(optional) factor or character vector indicating predefined groups
order	criteria used to select the "top" miRNAs or mRNAs. "pval" or "adj.pval" (default), or "logratio" or "FC". Only for class="miRNA" or "mRNA"
cex.lab	cex of the label axis. Default is 0.75

Value

A plot with the heatmap of the selected miRNAs or mRNAs.

See Also

plotCorrelation

Examples

data(data.obj)
plotHeatmap(data.obj, "miRNA", n=100)

mariavica/mircomb documentation built on Feb. 3, 2020, 2:28 a.m.