addCellIntMetadata#

Last Updated: Oct 02, 2023

Description#

Creates an additional metadata column with information about interacting and non-interacting cell types of the selected cell-cell interaction.

Usage#

addCellIntMetadata(
  gobject,
  spat_unit = NULL,
  feat_type = NULL,
  spatial_network = "spatial_network",
  cluster_column,
  cell_interaction,
  name = "select_int",
  return_gobject = TRUE
)

Arguments#

gobject

giotto object

spat_unit

spatial unit

feat_type

feature type

spatial_network

name of spatial network to use

cluster_column

column of cell types

cell_interaction

cell-cell interaction to use

name

name for the new metadata column

return_gobject

return an updated giotto object

Details#

This function will create an additional metadata column which selects interacting cell types for a specific cell-cell interaction. For example, if you want to color interacting astrocytes and oligodendrocytes it will create a new metadata column with the values “select_astrocytes”, “select_oligodendrocytes”, “other_astrocytes”, “other_oligodendroyctes” and “other”. Where “other” is all other cell types found within the selected cell type column.

Value#

Giotto object