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Get spatial network

getSpatialNetwork.Rd

Function to get a spatial network

Usage

getSpatialNetwork(
  gobject,
  spat_unit = NULL,
  name = NULL,
  output = c("spatialNetworkObj", "networkDT", "networkDT_before_filter", "outputObj"),
  set_defaults = TRUE,
  copy_obj = TRUE,
  verbose = TRUE
)

Arguments

gobject

giotto object

spat_unit

spatial unit (e.g. "cell")

name

name of spatial network

output

object type to return as. Options: 'spatialNetworkObj' (default), 'networkDT' and 'networkDT_before_filter' for data.table outputs.

set_defaults

set default spat_unit and feat_type. Change to FALSE only when expression and spat_info are not expected to exist.

copy_obj

whether to copy/duplicate when getting the object (default = TRUE)

verbose

be verbose

See also

Other spatial network data accessor functions: get_spatialNetwork(), setSpatialNetwork(), set_spatialNetwork()

Other functions to get data from giotto object: getDimReduction(), getExpression(), getFeatureInfo(), getGiottoImage(), getMultiomics(), getNearestNetwork(), getPolygonInfo(), getSpatialEnrichment(), getSpatialGrid(), getSpatialLocations(), get_NearestNetwork(), get_dimReduction(), get_feature_info(), get_giottoImage(), get_multiomics(), get_polygon_info(), get_spatialGrid(), get_spatialNetwork(), get_spatial_enrichment(), get_spatial_locations()