heatmapCombinations: Plot a heatmap of combinatorial states
In ataudt/chromstaR: Combinatorial and Differential Chromatin State Analysis for ChIP-Seq Data
Description
Usage
Arguments
Value
Author(s)
See Also
Examples
Description
Plot a heatmap that shows the binary presence/absence of marks for the different combinations.
Usage
1
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
Examples
1
2
3
4
5
6
marks <- c('H3K4me3','H3K27me3','H4K20me1')
heatmapCombinations(marks=marks)
file <- system.file("data","multivariate_mode-combinatorial_condition-SHR.RData",
package="chromstaR")
heatmapCombinations(file)
ataudt/chromstaR documentation built on Dec. 26, 2021, 12:07 a.m.
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Description Usage Arguments Value Author(s) See Also Examples
Description
Plot a heatmap that shows the binary presence/absence of marks for the different combinations.
Usage
1 | heatmapCombinations(model = NULL, marks = NULL, emissionProbs = NULL)
|
Arguments
model |
A |
marks |
A character vector with histone marks. If specified, |
emissionProbs |
A matrix with emission probabilities where |
Value
A ggplot object.
Author(s)
Aaron Taudt
See Also
Examples
1 2 3 4 5 6 | marks <- c('H3K4me3','H3K27me3','H4K20me1')
heatmapCombinations(marks=marks)
file <- system.file("data","multivariate_mode-combinatorial_condition-SHR.RData",
package="chromstaR")
heatmapCombinations(file)
|
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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