doHeatmap: Heatmap for spots-by-feature matrix

In PRECAST: Embedding and Clustering with Alignment for Spatial Datasets

Heatmap for spots-by-feature matrix

Description

Plot heatmap for a Seurat object with expressioin data.

Usage

  doHeatmap(seu, features=NULL, cell_label='Cell type', grp_label = FALSE,
                      pt_size=4, grp_color=NULL, ...)

Arguments

seu	an object named "Seurat". The object of class "Seurat" must include slot "scale.data".
features	an optional string vector, the features to be plotted.
cell_label	an optional string, the name of legend.
grp_label	an optional logical value, whether display the group names.
pt_size	the point size used in the plot
grp_color	the colors to use for the group color bar.
...	Other paramters passed to DoHeatmap.

Details

Nothing

Value

Return a ggplot2 object.

Note

nothing

Author(s)

Wei Liu

See Also

featurePlot

Examples

  library(Seurat)
  data(PRECASTObj)
  PRECASTObj <- SelectModel(PRECASTObj)
  seuInt <- IntegrateSpaData(PRECASTObj, species='unknown')
  seuInt <- ScaleData(seuInt)
  doHeatmap(seuInt, features=row.names(seuInt)[1:5])
  

PRECAST documentation built on May 29, 2024, 3 a.m.