Function to get a spatial enrichment data.table
Usage
get_spatial_enrichment(
gobject,
spat_unit = NULL,
feat_type = NULL,
enrichm_name = "DWLS",
output = c("spatEnrObj", "data.table"),
copy_obj = TRUE,
set_defaults = TRUE
)Arguments
- gobject
giotto object
- spat_unit
spatial unit (e.g. "cell")
- feat_type
feature type (e.g. "rna", "dna", "protein")
- enrichm_name
name of spatial enrichment results. Default "DWLS"
- output
what format in which to get information (e.g. "data.table")
- copy_obj
whether to deep copy/duplicate when getting the object (default = TRUE)
- set_defaults
set default spat_unit and feat_type. Change to FALSE only when expression and spat_info are not expected to exist.
See also
Other spatial enrichment data accessor functions:
getSpatialEnrichment(),
setSpatialEnrichment(),
set_spatial_enrichment()
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_locations()