geneAnswersHeatmap {GeneAnswers} | R Documentation

## Generate Concept-Gene Tabulates

### Description

A function to generate specified Concept-Gene Tabulates

### Usage

    geneAnswersHeatmap(x, showCats = c(1:5), catTerm = FALSE, geneSymbol = FALSE, catID=FALSE, nameLength='all', showAllGenes=FALSE, ...)

### Arguments

`x` | an instance of GeneAnswers objects
`showCats` | a numeric or string vector specified categories
`catTerm` | a logic value to specify whether mapping category IDs to category names
`geneSymbol` | a logic value to specify whether mapping gene IDs to gene symbols
`catID` | a logic value to specify whether show category IDs when catTerm is set to TRUE
`nameLength` | show how many first letters for long term names, 'all' for full name
`showAllGenes` | logic, show all genes in the heatmap or not
`...` | other parameters used by geneAnnotationHeatmap

### Details

This function generates concept-gene tabulates for an input GeneAnswers instance. The concept-gene tabulates contain two maps. Left side is a heatmap based on given expression matrix. Right side is a concept-gene map, which could be represented as two-color heatmap or table.

### Value

The function will generate a map without return value.

### Author(s)

Gang Feng, Pan Du and Simon Lin

### References

Feng, G., Du, P., Krett, N., Tessel, M., Rosen, S., Kibbe, W.A. and Lin, S.M., 'A collection of bioconductor methods to visualize gene-list annotations', BMC Research Notes 2010, 3:10

### See Also

`geneAnnotationHeatmap`

### Examples

    example(GeneAnswers)
    ## Not run: geneAnswersHeatmap(x, catTerm=TRUE, geneSymbol=TRUE)

[Package GeneAnswers version 2.26.0 Index]