crossSectionFeatPlot3D — crossSectionFeatPlot3D • Giotto

Visualize cells and feature expression in a virtual cross section according to spatial coordinates

crossSectionFeatPlot3D(
  gobject,
  spat_unit = NULL,
  feat_type = NULL,
  crossSection_obj = NULL,
  name = NULL,
  spatial_network_name = "Delaunay_network",
  show_other_cells = TRUE,
  other_cell_color = alpha("lightgrey", 0),
  default_save_name = "crossSectionGenePlot3D",
  ...
)

Arguments

gobject: giotto object
spat_unit: spatial unit
feat_type: feature type
crossSection_obj: cross section object as alternative input. default = NULL.
name: name of virtual cross section to use
spatial_network_name: name of spatial network to use
show_other_cells: logical. Default = TRUE
other_cell_color: color of cells outside the cross section. default = transparent.
default_save_name: default save name for saving, don't change, change save_name in save_param
...: parameters for spatGenePlot3D

Value

ggplot

Details

Description of parameters.