activateMatrix.Rd
Sets and extracts the active (default) matrix name of a MolecularAssay
.
activateMatrix(
object,
mtr_name,
assay_name = activeAssay(object),
verbose = NULL
)
activeMatrix(object, assay_name = activeAssay(object))
An object of class SPATA2
or, in case of S4 generics,
objects of classes for which a method has been defined.
Character value. The name of the matrix to activate as the default matrix.
Only relevant if the SPATA2
object contains more than
one assay: Denotes the assay of interest and thus the
molecular modality to use. Defaults to the active assay
as set by activateAssay()
.
Logical. If TRUE
, informative messages regarding
the computational progress will be printed.
(Warning messages will always be printed.)
activateMatrix(): Updated SPATA2
object.
activeMatrix(): Character value. Name of the currently active matrix in the respective assay.
library(SPATA2)
library(ggplot2)
data("example_data")
object <- example_data$object_UKF275T_diet
object <- normalizeCounts(object, mtr_name = "LogNormalize")
p1 <- plotSurface(object, color_by = "METRN") + labs(subtitle = activeMatrix(object))
object <- activateMatrix(object, mtr_name = "LogNormalize")
p2 <- plotSurface(object, color_by = "METRN") + labs(subtitle = activeMatrix(object))
plot(p1)
plot(p2)