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Messages - jcmartin

16
XCMS / Re: how to discard fillpeaks function
thank you for you both to answer,
my reason why I don't want to get fillpeaks is that I performed a large scale LCMS analysis, running over 800 samples within 9 different batches; then I need to apply a batch correction algorithm (van der Kloet et al) which does not like peaks filled; In fact, I will have to discard peaks that missed in 60% of the pool samples prior applying the correction; as an additional difficulty, I also need CAMERA to run, and it does not like 'NA'. How can I thus run CAMERA with NAs in data frame?
hope my explanation is clear...
thanks!
jc
17
XCMS / how to discard fillpeaks function
Hi,
I would like to process my data but not using fillpeaks. Hereafter is the return I got:

> reporttab<-diffreport(xset2,"échantillons","pools","urines_par_ech",10,metlin=0.15,h=480,w=640)
Erreur dans .local(object, ...) : NA values in xcmsSet. Use fillPeaks()
any idea how to circumvent this problem and to get to the reporttab step?

many thanks

jc