Get expression values#
Last Updated: Jan 14, 2025
Description#
Function to get expression values from giotto object
Usage#
get_expression_values(
gobject,
values = NULL,
spat_unit = NULL,
feat_type = NULL,
output = c("exprObj", "matrix"),
set_defaults = TRUE
)
Arguments#
|
giotto object |
|
expression values to extract (e.g. “raw”, “normalized”, “scaled”) |
|
spatial unit (e.g. “cell”) |
|
feature type (e.g. “rna”, “dna”, “protein”) |
|
what object type to retrieve the expression as. Currently either ‘matrix’ for the matrix object contained in the exprObj or ‘exprObj’ (default) for the exprObj itself are allowed. |
|
set default spat_unit and feat_type. Change to FALSE only when expression and spat_info are not expected to exist. |
Value#
expression matrix
See Also#
Other expression accessor functions: set_expression_values()
Other functions to get data from giotto object:
get_NearestNetwork()
, get_dimReduction()
,
get_feature_info()
, get_giottoImage()
, get_polygon_info()
,
get_spatialGrid()
, get_spatialNetwork()
,
get_spatial_enrichment()
, get_spatial_locations()