Subset raw subcellular information by location

Subsets Giotto object based on spatial coordinates. This subset function is intended for poly_info and feat_types for which there are no matching aggregated information.

Usage

subsetGiottoLocsSubcellular(
  gobject,
  poly_info = NULL,
  feat_type = NULL,
  x_min = NULL,
  x_max = NULL,
  y_min = NULL,
  y_max = NULL,
  z_max = NULL,
  z_min = NULL,
  verbose = FALSE
)

Arguments

gobject

giotto object

poly_info

character. which polygons to spatially subset

feat_type

character. which feature info to spatially subset

x_max, x_min, y_max, y_min, z_max, z_min

minimum and maximum x, y, and z coordinates to subset to

verbose

be verbose

Value

giotto object

Details

This is separate from subsetGiottoLocs because spat_units with attached aggregated information should be removed using a cell_ids-based approach in order to ensure that paired information is removed together. Polygons and points information without associated aggregated values do not have this issue and can be directly spatially subset.