Function to get a dimension reduction object
Arguments
- gobject
giotto object
- spat_unit
spatial unit (e.g. "cell")
- feat_type
feature type (e.g. "rna", "dna", "protein")
- reduction
reduction on cells or features (e.g. "cells", "feats")
- reduction_method
reduction method (e.g. "pca", "umap", "tsne")
- name
name of reduction results
- output
object type to return as. Either 'dimObj' (default) or 'matrix' of the embedding coordinates.
- 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 dimensional reduction data accessor functions:
getDimReduction()
,
setDimReduction()
,
set_dimReduction()
Other functions to get data from giotto object:
getDimReduction()
,
getExpression()
,
getFeatureInfo()
,
getGiottoImage()
,
getMultiomics()
,
getNearestNetwork()
,
getPolygonInfo()
,
getSpatialEnrichment()
,
getSpatialGrid()
,
getSpatialLocations()
,
getSpatialNetwork()
,
get_NearestNetwork()
,
get_feature_info()
,
get_giottoImage()
,
get_multiomics()
,
get_polygon_info()
,
get_spatialGrid()
,
get_spatialNetwork()
,
get_spatial_enrichment()
,
get_spatial_locations()