scITD (version 1.0.4)

plot_donor_matrix: Plot matrix of donor scores extracted from Tucker decomposition

Description

Plot matrix of donor scores extracted from Tucker decomposition

Usage

plot_donor_matrix(
  container,
  meta_vars = NULL,
  cluster_by_meta = NULL,
  show_donor_ids = FALSE,
  add_meta_associations = NULL,
  show_var_explained = TRUE,
  donors_sel = NULL,
  h_w = NULL
)

Value

The project container with a heatmap plot of donor scores in container$plots$donor_matrix.

Arguments

container

environment Project container that stores sub-containers for each cell type as well as results and plots from all analyses

meta_vars

character Names of metadata variables to plot alongside the donor scores. Can include more than one variable. (default=NULL)

cluster_by_meta

character One metadata variable to cluster the heatmap by. If NULL, donor clustering is done using donor scores. (default=NULL)

show_donor_ids

logical Set to TRUE to show donor id as row name on the heamap (default=FALSE)

add_meta_associations

character Adds meta data associations with each factor as top annotation. These should be generated first with plot_meta_associations(). Set to 'pval' if used 'pval' in plot_meta_associations(), otherwise set to 'rsq'. If NULL, no annotation is added. (default=NULL)

show_var_explained

logical Set to TRUE to display the explained variance for each factor (default=TRUE)

donors_sel

character A vector of a subset of donors to include in the plot (default=NULL)

h_w

numeric Vector specifying height and width (defualt=NULL)

Examples

test_container <- plot_donor_matrix(test_container, show_donor_ids = TRUE)