get_cell_id: Get cell IDs for a given spatial unit

In drieslab/Giotto_site_suite: Spatial Single-Cell Transcriptomics Toolbox

Get cell IDs for a given spatial unit

Description

Data for each spatial unit is expected to agree on a single set of cell_IDs that are shared across any feature types. These cell_IDs are stored within the giotto object's cell_ID slot. Getters and setters for this slot directly retrieve (get) or replace (set) this slot.

Usage

get_cell_id(gobject, spat_unit = NULL, set_defaults = TRUE)

Arguments

gobject	giotto object
spat_unit	spatial unit (e.g. "cell")
set_defaults	set default spat_unit and feat_type. Change to FALSE only when expression and spat_info are not expected to exist.

Value

character vector of cell_IDs

See Also

set_cell_id

Other functions to set data in giotto object: get_feat_id(), setCellMetadata(), setDimReduction(), setExpression(), setFeatureInfo(), setFeatureMetadata(), setGiottoImage(), setMultiomics(), setNearestNetwork(), setPolygonInfo(), setSpatialEnrichment(), setSpatialGrid(), setSpatialLocations(), setSpatialNetwork(), set_NearestNetwork(), set_cell_id(), set_cell_metadata(), set_dimReduction(), set_expression_values(), set_feat_id(), set_feature_info(), set_giottoImage(), set_multiomics(), set_polygon_info(), set_spatialGrid(), set_spatialNetwork(), set_spatial_enrichment(), set_spatial_locations()

drieslab/Giotto_site_suite documentation built on April 26, 2023, 11:51 p.m.