SummarizedExperimentasSummarizedExperiment.RdTransforms an SPATA2 object to an object of class
SummarizedExperiment. See details for more information.
asSummarizedExperiment(object, ...)An object of class spata2.
The features to be renamed specified according to the following syntax: 'new_feature_name' = 'old_feature_name'. This applies to coordinates, too. E.g. ... ~ 'image_col' = 'x', 'image_row' = 'y' renames the coordinate variables to 'image_col' and 'image_row'.
An object of class SummarizedExperiment.
Output object contains the count matrix in slot @assays and feature data.frame combined with barcode-spot coordinates in slot @colData.
Slot @metadata is a list that contains the image object in slot $image.