PlotHeatmap: Plot a heatmap of interactions

In coRNAi: Analysis of co-knock-down RNAi data

Description

Plots a heatmap of the mean residuals for each interaction pair.

Usage

PlotHeatmap(toptable, colpal = colorRampPalette(c("blue", "white", "yellow")),
key=FALSE,margins=c(7,7),na.color="grey",breaks=seq(-1,1,by=0.01),...)

Arguments

toptable	a data frame created by with the interaction estimates as "logFC" and pair id as "ID". Usually created by topTable function in limma
colpal	color palette to be used in the plot
key	logical should a color key be included
margins	margins for plot
na.color	color for NA values
breaks	mapping data to colors in colpal
...	additional arguments to be passed to heatmap.2 call

Value

a plot

Author(s)

Elin Axelsson

See Also

heatmap.2

Examples

data(screen1_raw)
df = cellHTS2df(screen1_raw,neutral="Fluc")
tt = data.frame("size"=runif(length(unique(df$Pair[df$Type=="comb"])),-2,2),stringsAsFactors=FALSE)
rownames(tt) = unique(df$Pair[df$Type=="comb"])
PlotHeatmap(tt)

coRNAi documentation built on Nov. 17, 2017, 11:14 a.m.