plotNicheClusterConnectivity — plotNicheClusterConnectivity • Giotto

plot niche cluster connectivity

plotNicheClusterConnectivity(
  gobject,
  spat_unit = "niche cluster",
  feat_type = "connectivity",
  values = "normalized",
  show_plot = NULL,
  return_plot = NULL,
  save_plot = NULL,
  save_param = list(),
  theme_param = list(),
  default_save_name = "NicheClusterConnectivity"
)

Arguments

gobject: giotto object
spat_unit: name of spatial unit niche stored cluster features
feat_type: name of the feature type stored niche cluster connectivities
values: name of the expression matrix stored connectivity values
show_plot: logical. show plot
return_plot: logical. return ggplot object
save_plot: logical. save the plot
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

Details

This function plots the niche cluster connectivity matrix