tRanslatome (version 1.10.0)

Heatmap: HeatmapEnrichedHelpfile

Description

Heatmap is a function that plots the top enriched regulatory element or GO terms for the first and second level of analysis in a heatmap. The number of terms to be displayed can be set.

Usage

Heatmap(object, outputformat="on screen", n.nodes.1stlevel="5", n.nodes.2ndlevel="5", mult.cor=TRUE, ...)

Arguments

object

an object of class GOsets.

outputformat

a character string specifying if the plot is saved in jpeg (jpeg), postscript (postscript), pdf (pdf) format, or it is simply displayed on the screen(on screen). By default this value is on screen.

n.nodes.1stlevel

a numeric value specifying the number of top enriched GO terms, from the first level, that will be represented on the plot. By default the value is set to 5.

n.nodes.2ndlevel

a numeric value specifying the number of top enriched GO terms, from the second level, that will be represented on the plot. By default the value is set to 5.

mult.cor

a boolean variable specifying whether the displayed significance values are multiple test corrected or the original p-values obtained from the selected enrichment method. By default it is set to TRUE.

...

if the class of object is GOsets, it accepts a character string named ontology selecting the GO ontology of interest, either CC,BP or MF.

See Also

EnrichedSets RegulatoryEnrichment GOsets GOEnrichment GOsims

Examples

data(tRanslatomeSampleData)
Heatmap(CCEnrichment, ontology="MF")