celdaHeatmap: Plot celda Heatmap

Description Usage Arguments Value See Also Examples

Description

Render a stylable heatmap of count data based on celda clustering results.

Usage

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celdaHeatmap(sce, ...)

## S4 method for signature 'SingleCellExperiment'
celdaHeatmap(
  sce,
  useAssay = "counts",
  altExpName = "featureSubset",
  featureIx = NULL,
  nfeatures = 25,
  ...
)

Arguments

sce

A SingleCellExperiment object returned by celda_C, celda_G, or celda_CG.

...

Additional parameters passed to plotHeatmap.

useAssay

A string specifying which assay slot to use. Default "counts".

altExpName

The name for the altExp slot to use. Default "featureSubset".

featureIx

Integer vector. Select features for display in heatmap. If NULL, no subsetting will be performed. Default NULL. Only used for sce containing celda_C model result returned by celda_C.

nfeatures

Integer. Maximum number of features to select for each gene module. Default 25. Only used for sce containing celda_CG or celda_G model results returned by celda_CG or celda_G.

Value

list A list containing dendrogram information and the heatmap grob

See Also

'celdaTsne()' for generating 2-dimensional tSNE coordinates

Examples

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celda documentation built on Nov. 8, 2020, 8:24 p.m.