heatmapCombinations {chromstaR} | R Documentation

## Plot a heatmap of combinatorial states

### Description

Plot a heatmap that shows the binary presence/absence of marks for the different combinations.

### Usage

    heatmapCombinations(model = NULL, marks = NULL, emissionProbs = NULL)

### Arguments

`model` | A `multiHMM` object or file that contains such an object.
`marks` | A character vector with histone marks. If specified, `model` will be ignored.
`emissionProbs` | A matrix with emission probabilities where `dimnames(emissionProbs)` gives the state labels and marks. This option is helpful to plot probabilistic chromatin states (not part of chromstaR). If specified, `model` and `marks` will be ignored.

### Value

A `ggplot` object.

### Author(s)

Aaron Taudt

### See Also

`plotting`

### Examples

    marks <- c('H3K4me3','H3K27me3','H4K20me1')
    heatmapCombinations(marks=marks)

    file <- system.file("data","multivariate_mode-combinatorial_condition-SHR.RData",
                        package="chromstaR")
    heatmapCombinations(file)

[Package chromstaR version 1.8.1 Index]