xcmsEIC-class: Class xcmsEIC, a class for multi-sample extracted ion chromatograms
Description
This class is used to store and plot parallel extracted ion
chromatograms from multiple sample files. It integrates with the
xcmsSet class to display peak area integrated during peak
identification or fill-in.
Objects from the Class
Objects can be created with the getEIC method of
the xcmsSet class. Objects can also be created by calls
of the form new("xcmsEIC", ...).Slots
eic:-
list containing named entries for every sample. for each entry, a
list of two column EIC matricies with retention time and intensity
mzrange:-
two column matrix containing starting and ending m/z for each EIC
rtrange:-
two column matrix containing starting and ending time for
each EIC
rt:-
either
"raw" or "corrected" to specify retention
times contained in the object
groupnames:-
group names from
xcmsSet object used to generate EICs
Methods
- groupnames
-
signature(object = "xcmsEIC"): get groupnames slot
- mzrange
-
signature(object = "xcmsEIC"): get mzrange slot
- plot
-
signature(x = "xcmsEIC"): plot the extracted ion
chromatograms
- rtrange
-
signature(object = "xcmsEIC"): get rtrange slot
- sampnames
-
signature(object = "xcmsEIC"): get sample names