plot_heatplus: Potential replacement for heatmap.2 based plots.

In elsayed-lab/hpgltools: A pile of (hopefully) useful R functions

Potential replacement for heatmap.2 based plots.

Description

Heatplus is an interesting tool, I have a few examples of using it and intend to include them here.

Usage

plot_heatplus(
  expt,
  type = "correlation",
  method = "pearson",
  annot_columns = "batch",
  annot_rows = "condition",
  cutoff = 1,
  cluster_colors = NULL,
  scale = "none",
  cluster_width = 2,
  cluster_function = NULL,
  heatmap_colors = NULL
)

Arguments

expt	Experiment to try plotting.
type	What comparison method to use on the data (distance or correlation)?
method	What distance/correlation method to perform?
annot_columns	Set of columns to include as terminal columns next to the heatmap.
annot_rows	Set of columns to include as terminal rows below the heatmap.
cutoff	Cutoff used to define color changes in the annotated clustering.
cluster_colors	Choose colors for the clustering?
scale	Scale the heatmap colors?
cluster_width	How much space to include between clustering?
cluster_function	Choose an alternate clustering function than hclust()?
heatmap_colors	Choose your own heatmap cluster palette?

Value

List containing the returned heatmap along with some parameters used to create it.

See Also

[Heatplus] [fastcluster]

elsayed-lab/hpgltools documentation built on May 9, 2024, 5:02 a.m.