seu_complex_heatmap: Plot Annotated Complexheatmap from Seurat object

In whtns/seuratTools: Tools for Managing Seurat Objects

Plot Annotated Complexheatmap from Seurat object

Description

Plot Annotated Complexheatmap from Seurat object

Usage

seu_complex_heatmap(
  seu,
  features = NULL,
  group.by = "ident",
  cells = NULL,
  layer = "scale.data",
  assay = NULL,
  group.bar.height = 0.01,
  column_split = NULL,
  col_arrangement = "ward.D2",
  mm_col_dend = 30,
  embedding = "pca",
  ...
)

Arguments

features	Vector of features to plot. Features can come
group.by	Name of one or more metadata columns to annotate columns by (for example, orig.ident)
cells	Cells to retain
column_split	whether to split columns by metadat value
col_arrangement	how to arrange columns whether with a dendrogram (Ward.D2, average, etc.) or exclusively by metadata category
mm_col_dend	height of column dendrogram
...	additional arguments passed to ComplexHeatmap::Heatmap
object	A Seurat object
emedding	for column dendrogram

Examples

# plot top 50 variable genes
top_50_features <- VariableFeatures(human_gene_transcript_seu)[1:50]
seu_complex_heatmap(human_gene_transcript_seu, features = top_50_features)

whtns/seuratTools documentation built on Oct. 28, 2024, 7:18 a.m.