Plot a correlation heatmap — rna.plot

This function plots a Pearson correlation heatmap for a given SummarizedExperiment object.

Usage

rna.plot_corrheatmap(
  dds,
  lower = 0,
  upper = 1,
  pal = "PRGn",
  pal_rev = FALSE,
  indicate = NULL,
  font_size = 12,
  plot = TRUE,
  ...
)

lower: Numeric. Lower limit of the color scale. Default is 0.
upper: Numeric. Upper limit of the color scale. Default is 1.
pal: Character. Brewer color palette to be used. Default is "PRGn". See brewer.pal.info for options
pal_rev: Logical. If TRUE, color palette is reversed. Default is FALSE.
indicate: Character. Column name from colData to use for annotations. Default is NULL.
font_size: Numeric. Font size for labels. Default is 12.
plot: Logical. If FALSE, no plot is generated, only data frame is returned. Default is TRUE.
...: Other arguments to be passed to Heatmap.
dep: A DESeqDataSet object.
significant: Logical. If TRUE, only significant correlations are plotted. Default is TRUE.

(Invisibly) a data frame with Pearson correlation values is returned.