Function to get a spatial network
Usage
get_spatialNetwork(
gobject,
spat_unit = NULL,
name = NULL,
output = c("spatialNetworkObj", "networkDT", "networkDT_before_filter", "outputObj"),
set_defaults = TRUE,
copy_obj = TRUE,
verbose = TRUE,
simplify = 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
- simplify
logical. Whether or not to take object out of a list when there is a length of 1.
See also
Other spatial network data accessor functions:
getSpatialNetwork(),
setSpatialNetwork(),
set_spatialNetwork()
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_spatial_enrichment(),
get_spatial_locations()