Convenience accessor to the organelle classes in an 'MSnSet'.
This function returns the organelle classes of an
MSnSet
instance. As a side effect, it prints out the classes.
getMarkerClasses(object, fcol = "markers", ...)
An instance of class "MSnSet"
.
The name of the markers column in the featureData
slot. Default is markers
.
Additional parameters passed to sort
from the base package.
A character
vector of the organelle classes in the data.
getMarkers
to extract the marker
proteins. See markers
for details about spatial
markers storage and encoding.
library("pRolocdata")
data(dunkley2006)
organelles <- getMarkerClasses(dunkley2006)
## same if markers encoded as a matrix
dunkley2006 <- mrkVecToMat(dunkley2006, mfcol = "Markers")
organelles2 <- getMarkerClasses(dunkley2006, fcol = "Markers")
stopifnot(all.equal(organelles, organelles2))