Xcalibur Help

[Rganga]

Hi to All,
I am new with Xcalibur. I have some complications. First, I can't do an Automatic tune, it appears inactive in my tune menu, how can I resolve it?
Another problem is that I cant quantify some peaks. I work with C13 and Natives, for example for the same component I can identify the C13 and Native correctly by Qual browser, but when I go to QuanBrowser I can't find one or the other depending on the component. I checked the processing method and the retention times and the spectrum and they are ok. Where could be the problem?
Thank you very much.

[lmh]

Sorry, I'm not fully understanding. Do you mean that in qualbrowser, the things you are looking for are not listed in the right-hand pane of the window, or do you mean they are listed, but when you click on them, you find that the peak has not been detected in particular samples, even though you know there is a peak present?

Qualbrowser should show the same peaks as you'd see if you open the processing method editor, and open the same file in "Open raw file" from the file menu. I assume you are finding all the peaks you want by the "Open raw file" approach and aren't missing anything here?

[Rganga]

Thank you very much for your response.
Yes the fact is that using the Native and C13 standards, which means that I am sure the peaks must be there. I can see the peaks in the qualbrowser (by checking the spectrum components of each peak), but when I go to the Quan I can't find some peaks, specially 123, 118 and 105 PCBs. I verified everything: The RT, processing method,...etc. I can't sort it out. Any Idea please.
Thank you,

[lmh]

if you open the processing method editor, and open one of the data files using file - open raw file, then click on the component of interest in the right-hand window, does a shaded-in peak appear in the bottom left window? If not, then the processing method has been unable to find the peak of interest (even though you can see it in qualbrowser). If this is the case, it won't be in the data when you look in quanbrowser either. Likely problems are retention time outside the "correct" window, S/N too low, thresholds wrong in integrators. Given that Xcalibur has three integrators, you will need to experiment with the parameters of whichever you are using until you get a peak that is correctly integrated in all samples. You'll need to experiment with the first two tabs of the processing method editor (identification and integration, I think) Good luck!