plotComplexHeatmap: Creating a ComplexHeatmap from expression or reducedDim data...

In jenzopr/singlecellutils: Utility functions for single-cell data

Description

This function serve as a wrapper for the Heatmap function and uses features to show expression values or columns from the use_dimred slot.

Usage

plotComplexHeatmap(object, features, exprs_values = "normcounts",
  use_dimred = NULL, split_by = NULL, rownames = NULL,
  scale = NULL, col = NULL, ...)

Arguments

object	A SingleCellExperiment object.
features	A character vector, vector of indices or a named list thereof. In case of a list, rows are split accordingly.
exprs_values	String indicating which assay contains the data that should be used for plotting.
use_dimred	A character string indicating which dimension reduction to use, or NULL.
split_by	Character vector indicating by which columns should be split. In case of length of one, it determines a column name of the colData slot.
rownames	A string indicating a column name of rowData slot, used as alternative rownames.
scale	A logical, indicating whether data should be scaled before plotting.
col	A vector of colors if the color mapping is discrete or a color mapping function if the matrix is continuous. See Heatmap.
...	Additional arguments passed on to the Heatmap function.

Value

A Heatmap-class object.

jenzopr/singlecellutils documentation built on June 12, 2019, 2:51 a.m.