Hi to all and good year!
I have had a problem running fillPeaks.
Controllo10 Error in checkSlotAssignment(object, name, value) : "scantime" is not a slot in class “NULL”
This are the settings I use:
xset <- xcmsSet(files, method="centWave", nSlaves=4, polarity="positive", ppm=5)
xset <- group(xset, bw=30, mzwid=0.025, minfrac=0.5, minsamp=10)
xset.retcor <- retcor(xset, method="obiwarp", profStep=0.1, distFunc= "cov", plottype="deviation")
xset.retcor <- group(xset.retcor, bw=10, mzwid=0.025, minfrac=0.5, minsamp=10)
xset.finale <- fillPeaks(xset.retcor)
My data set is made up of 60 negative control and 15 positive control. Is correct to use minsamp=10 that is 2/3 of the positive control? My data were aquired with Agilent LC/qTOF.
Best