Creates dendrogram for selected clusters.

showClusterDendrogram(
  gobject,
  expression_values = c("normalized", "scaled", "custom"),
  cluster_column,
  cor = c("pearson", "spearman"),
  distance = "ward.D",
  h = NULL,
  h_color = "red",
  rotate = FALSE,
  show_plot = NA,
  return_plot = NA,
  save_plot = NA,
  save_param = list(),
  default_save_name = "showClusterDendrogram",
  ...
)

Arguments

gobject

giotto object

expression_values

expression values to use

cluster_column

name of column to use for clusters

cor

correlation score to calculate distance

distance

distance method to use for hierarchical clustering

h

height of horizontal lines to plot

h_color

color of horizontal lines

rotate

rotate dendrogram 90 degrees

show_plot

show plot

return_plot

return ggplot object

save_plot

directly save the plot [boolean]

save_param

list of saving parameters, see showSaveParameters

default_save_name

default save name for saving, don't change, change save_name in save_param

...

additional parameters for ggdendrogram()

Value

ggplot

Details

Expression correlation dendrogram for selected clusters.

Examples

data(mini_giotto_single_cell)

# cell metadata
cell_metadata = pDataDT(mini_giotto_single_cell)

# create heatmap
showClusterDendrogram(mini_giotto_single_cell,
                      cluster_column = 'cell_types')