Dear Metabolomicians!
Does anyone of you use MAVEN?
I am having problems visualizing data. I ran an untargeted experiment with data containing MS1 and MS2 (Top10) spectra (QE Thermo Fisher). I converted the .raw files to .mzXML and opened it in MAVEN.
In the attached screenshot you see the dashed TIC (why can't I get it smaller? How can I change the appearance?) and the EIC for the positively charged glutamate ion. Believe me, in Compound Discoverer or the Qualbrowser glutamate gives a strong and beautiful peak in the same dataset.
Do you have a hint what I should be looking for? Or does MAVEN simply not work with untargeted data from MS1+2 Top10 experiments?
Best,
Debbie.
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Hi Debbie,
I haven't used MAVEN and by the lack of responses, it doesn't seem like many (any?) people here use it.
I would suggest trying a few things and letting us know if any worked/didn't:
- Increase the ppm window until you see the peak you expect. If you never see it, there is likely a bigger issue going on.
- Use msconvert and save the data with and without centroiding.
- Use msconvert and save the data with a filter for MS1 only.
I assume you are using MAVEN for the analysis part of the program?
As another follow up, you could look at "El MAVEN" (https://elucidatainc.github.io/ElMaven/). The website says the following:
It is being updated fairly recently, with the latest release coming out just 5 days ago.