Function to get a spatial location data.table
Usage
get_spatial_locations(
gobject,
spat_unit = NULL,
spat_loc_name = NULL,
output = c("spatLocsObj", "data.table"),
copy_obj = TRUE,
verbose = TRUE,
set_defaults = TRUE,
simplify = TRUE
)Arguments
- gobject
giotto object
- spat_unit
spatial unit (e.g. "cell")
- spat_loc_name
name of spatial locations (defaults to first name in spatial_locs slot, e.g. "raw")
- output
what object type to get the spatial locations as. Default is as a 'spatLocsObj'. Returning as 'data.table' is also possible.
- copy_obj
whether to copy/duplicate when getting the object (default = TRUE)
- verbose
be verbose
- set_defaults
set default spat_unit and feat_type. Change to FALSE only when expression and spat_info are not expected to exist.
- simplify
logical. Whether or not to take object out of a list when there is a length of 1.
See also
Other spatial location data accessor functions:
getSpatialLocations(),
setSpatialLocations(),
set_spatial_locations()
Other functions to get data from giotto object:
getDimReduction(),
getExpression(),
getFeatureInfo(),
getGiottoImage(),
getMultiomics(),
getNearestNetwork(),
getPolygonInfo(),
getSpatialEnrichment(),
getSpatialGrid(),
getSpatialLocations(),
getSpatialNetwork(),
get_NearestNetwork(),
get_dimReduction(),
get_feature_info(),
get_giottoImage(),
get_multiomics(),
get_polygon_info(),
get_spatialGrid(),
get_spatialNetwork(),
get_spatial_enrichment()