| extractMS {PepSAVIms} | R Documentation |
Extract embedded mass spectrometry data
Description
Extract mass spectrometry data from an object with class binMS, class
filterMS, or class msDat.
Usage
extractMS(msObj, type = "matrix")
Arguments
msObj |
An an object with class |
type |
A character string with value either "matrix", or "msDat". If
"matrix" is provided as the argument, then the mass-to-charge values,
charge values, and mass spectrometry data are combined into a single
matrix and returned. If "msDat" is provided as the argument, then an
|
Details
A convenience function for extracting and inspecting the mass
spectrometry data in a binMS, filterMS, or msDat
object. binMS and filterMS objects are lists that contain
an msDat object, and specifying "msDat" for type merely
returns the msDat element from the list for these classes of
object. specifying "msDat" for an object with class "msDat"
merely returns the argument, i.e. is the identity function. When
"matrix" is specified, then the elements in the embedded
msDat object are combined into a single matrix using cbind
and returned.
Value
Returns either a matrix containing the mass spectrometry data if
"matrix" is specified as the argument to type, or an object
with class msDat if "msDat" is specified as the argument to
type. See Details for more detail regarding the return
objects.