getCoordsDf.Rd
Extracts the coordinates data.frame of the identified or known entities the analysis revolves around.
getCoordsDf(object, ...)
# S4 method for class 'SPATA2'
getCoordsDf(
object,
variables = NULL,
img_name = activeImage(object),
exclude = TRUE,
as_is = FALSE,
...
)
# S4 method for class 'SpatialData'
getCoordsDf(
object,
img_name = activeImage(object),
scale = TRUE,
exclude = TRUE,
wh = FALSE,
as_is = FALSE,
...
)
An object of class SPATA2
or, in case of S4 generics,
objects of classes for which a method has been defined.
Additional arguments given to joinWithVariables()
if argument
variables
is specified.
Character or NULL
. If character, specifies the
variables that are merged to the coordinates data.frame via joinWithVariables()
.
Only relevant if the SPATA2
object contains images. If so,
specifies the name of the image to which the original coordinates are scaled.
If NULL
, defaults to the active image.
Logical. If TRUE
, observations that are no longer part of the dataset
(but still exist in the coordinates data frame for potential use in spatial computations)
will be excluded and removed before returning the data frame.
Logical. If TRUE
, no processing and coordinate scaling is conducted at all.
Data.frame that, among others, contains at least the variables x_orig, y_orig and barcodes