Open etrh opened 6 years ago
You can use the plotChromPeakDensity
function on the m/z slice with your strange peak groups to check how the peak group was defined:
mzr <- c(163.0040, 163.1485)
par(mfrow = c(2, 1))
plot(chromatogram(xdata, mz = mzr, aggregationFun = "max"))
highlightChromPeaks(xdata, mz = mzr, whichPeaks = "apex_within")
plotChromPeakDensity(xdata, type = "apex_within", mz = mzr, param = pgp)
This should provide you with some more information on the specific peak group.
I am seeing very strange results in
converted_to_xset@groups
Peaks that are almost 30 seconds apart are grouped into the same group!
These are the parameters I have used in retention time correction and alignment steps:
What is happening?