heatmapPlot: Generates a heatmap with effect sizes for all genes which...

In MetaIntegrator: Meta-Analysis of Gene Expression Data

Description

Generates a heatmap with effect sizes for all genes which pass a filter in all measured diseases

Usage

heatmapPlot(metaObject, filterObject, colorRange = c(-1, 1),
  geneOrder = FALSE, datasetOrder = FALSE, displayPooled = TRUE,
  useFormattedNames = TRUE)

Arguments

metaObject	a Meta object which must have the $originalData, $metaAnalysis populated
filterObject	a MetaFilter object containing the signature genes that will be used for the heatmap
colorRange	a vector of length two with the minimum and maximum values for the heatmap colors. (default: c(-1,1))
geneOrder	FALSE if the genes should be ordered by pooled effect size in this datasets. Otherwise, the ordered names of the genes. (default: FALSE)
datasetOrder	FALSE if the datasets should be ordered alphabetically. Otherwise, the ordered names of the datasets (default: FALSE)
displayPooled	TRUE if the pooled effect sizes should be displayed. (default: TRUE)
useFormattedNames	TRUE if the formatted datasetNames should be displayed. (default: TRUE)

Value

Generates a heatmap with effect sizes for all genes which pass a filter

Author(s)

Winston A. Haynes

Examples

heatmapPlot(tinyMetaObject, tinyMetaObject$filterResults[[1]])

Example output

Setting options('download.file.method.GEOquery'='auto')
Setting options('GEOquery.inmemory.gpl'=FALSE)

MetaIntegrator documentation built on March 26, 2020, 6:29 p.m.