Join barcodes with additional variables

These functions add dimensional reduction results in form of additional variables to the provided spata data.frame.

joinWithPca(object, spata_df, n_pcs = NULL, verbose = NULL, force = FALSE, ...)

joinWithTsne(object, spata_df, verbose = NULL, force = FALSE, ...)

joinWithUmap(object, spata_df, verbose = NULL, force = FALSE, ...)

Arguments

object

An object of class SPATA2 or, in case of S4 generics, objects of classes for which a method has been defined.

n_pcs

Numeric value or NULL. If numeric, specifies the number of principal components to use. If NULL, all principal components are used (as computed with runPCA()).

verbose

Logical. If TRUE, informative messages regarding the computational progress will be printed.

(Warning messages will always be printed.)

force

Logical. Only relevant if the spata data.frame provided already contains the variables that would be added with the function. If set to TRUE, the variables are added anyway.

...

Addtional arguments given to dplyr::left_join().

Value

The input data.frame with the additional dimensional reduction variables