Plot correlation heatmap

This function will generate a combined heatmap with each one corresponding to the TF expression and binding activity as selected by using the function GetCorrelation. It was modified from the package ArchR. More details can be found: https://www.archrproject.com/bookdown/myeloid-trajectory-monocyte-differentiation.html

CorrelationHeatmap(
  trajectory1,
  trajectory2,
  name1 = NULL,
  name2 = NULL,
  labelRows1 = TRUE,
  labelRows2 = TRUE,
  labelTop1 = 50,
  labelTop2 = 50,
  limits1 = c(-2, 2),
  limits2 = c(-2, 2)
)

Arguments

trajectory1

A SummarizedExperiment object for TF activity generated by the function GetTrajectory

trajectory2

A SummarizedExperiment object for TF expression

name1

Name for the first object

name2

Name for the second object

labelRows1

Whether or not to show all labels for the first heatmap

labelRows2

Whether or not to show all labels for the second heatmap

labelTop1

A number indicating how many of the top N features, based on variance, should be labeled on the side of the first heatmap

labelTop2

A number indicating how many of the top N features, based on variance, should be labeled on the side of the second heatmap

limits1

A numeric vector of two numbers that represent the lower and upper limits of the second heatmap color scheme. generated by the function GetTrajectory

limits2

A numeric vector of two numbers that represent the lower and upper limits of the second heatmap color scheme. generated by the function GetTrajectory

Value

A heatmap