heatmap_cross_sample: Plot heatmap across samples.

In altairwei/rhapsodykit: A Set of Tools for BD Rhapsody WTA Downstream Analysis

Plot heatmap across samples.

Description

Plot heatmap across samples.

Usage

heatmap_cross_sample(
  x,
  genes,
  samples = NULL,
  clusters = NULL,
  groups = NULL,
  type = c("counts", "logcounts", "cpm", "vstresiduals"),
  ...
)

## S3 method for class 'Seurat'
heatmap_cross_sample(
  x,
  genes,
  samples = NULL,
  clusters = NULL,
  groups = NULL,
  type = c("counts", "logcounts", "cpm", "vstresiduals"),
  ...
)

## S3 method for class 'SingleCellExperiment'
heatmap_cross_sample(
  x,
  genes,
  samples = NULL,
  clusters = NULL,
  groups = NULL,
  type = c("counts", "logcounts", "cpm", "vstresiduals"),
  ...
)

## S3 method for class 'list'
heatmap_cross_sample(
  x,
  genes,
  samples = NULL,
  clusters = NULL,
  groups = NULL,
  type = c("counts", "logcounts", "cpm", "vstresiduals"),
  ...
)

## S3 method for class 'array'
heatmap_cross_sample(
  x,
  genes,
  samples = NULL,
  clusters = NULL,
  groups = NULL,
  type = c("counts", "logcounts", "cpm", "vstresiduals"),
  ...
)

Arguments

x	Data object to plot.
genes	Genes to be queried.
samples	Samples to be queried.
clusters	Cell subpopulation to be queried.
groups	Group infromation.
type	Value type of pseudo-bulk data.
...	Args passed to muscat::aggregateData

Methods (by class)

• Seurat: Plot heatmap for Seurat object.

• SingleCellExperiment: Plot heatmap for SingleCellExperiment object.

• list: Plot heatmap for a list of matrices.

• array: Plot heatmap for array.

altairwei/rhapsodykit documentation built on Feb. 1, 2023, 8:52 a.m.