This page provides an overview of all chromstaR plotting functions.

Plotting functions that work on `uniHMM`

objects:

`plotHistogram`

Read count histogram with fitted mixture distributions.

Plotting functions that work on `multiHMM`

objects:

`heatmapCountCorrelation`

Heatmap of read count correlations.

`heatmapTransitionProbs`

Heatmap of transition probabilities of the Hidden Markov Model.

`heatmapCombinations`

Binary presence/absence pattern of combinatorial states.

`plotExpression`

Boxplot of expression values that overlap combinatorial states.

Plotting functions that work on `multiHMM`

and `combinedMultiHMM`

objects:

`heatmapCountCorrelation`

Heatmap of read count correlations.

`plotEnrichCountHeatmap`

Heatmap of read counts around annotation.

`plotEnrichment`

Enrichment of combinatorial states around annotation.

`plotFoldEnrichHeatmap`

Enrichment of combinatorial states at multiple annotations.

`plotExpression`

Boxplot of expression values that overlap combinatorial states.

Other plotting functions:

`heatmapCombinations`

Binary presence/absence pattern of combinatorial states.

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