Obtain coordinates matrix — getCoordsMtr • SPATA2

Wraps the coordinates in a matrix with column names x and y and rownames that correspond to the barcodes.

getCoordsMtr(
  object,
  img_name = activeImage(object),
  orig = FALSE,
  exclude = TRUE
)

Arguments

object: An object of class SPATA2 or, in case of S4 generics, objects of classes for which a method has been defined.
img_name: Character value. The name of the image the coordinates are scaled to. If NULL, defaults to the active image.
orig: Logical value. If TRUE, the coordinates are not scaled to any image.

Value

A matrix.

Details

In contrast to getCoordsDf(), column names of the output matrix are always named x and y, regardless of whether they correspond to the original x- and y-coordiantes (x_orig, y_orig) or if they are scaled to the image specified with img_name. The input for argument orig decides!