Hi I am trying to use the DecoMetDIA package with my centroided mzXML files (from Sciex WIFF)
The deconvoluted peaks in the results seem to have something wrong, most of the MS2 peaks (in all precursors) lie in the range of 45-100 m/z but their intensities have a good distribution
I am attaching a screenshot of the same. Please let me know if I am doing something incorrectly
DecoMetDIA(d.in = ".", d.out = "DecoMetDIA_Result", nSlaves = 1,
peakwidth = c(5, 30), sn = 6, ppm.pd = 10,
polarity = c("positive", "negative")[2], lc = c("HILIC", "RP")[1],
minfrac = 0.5, bw = 5, mzwid = 0.015,
is.ms1.filter = TRUE, thr.ms1.filter = 100,
is.plot.eic.feature = FALSE, is.check.eic = FALSE,
is.PlotEIC.MS2 = FALSE, snthr.ms2 = 5,
fp.swath.setup = "../swath.csv", ppm.ms2.mtp = 10,
int.filter = 50, minfrac.vote = 0.5, is.plot.eic.spec = FALSE,
is.output.spec.smp = TRUE, is.span.constant = FALSE, rerun = FALSE,
rerun.ms2 = FALSE, is.ms1.only = FALSE, is.dec.all = FALSE,
is.dec.smoothed = FALSE, is.norm.consensus = TRUE)
Hi I am trying to use the DecoMetDIA package with my centroided mzXML files (from Sciex WIFF)
The deconvoluted peaks in the results seem to have something wrong, most of the MS2 peaks (in all precursors) lie in the range of 45-100 m/z but their intensities have a good distribution
I am attaching a screenshot of the same. Please let me know if I am doing something incorrectly