[proteowizard-support] MSE data conversion

[Chih-Chiang T. <chi...@gm...>]

Hi proteowizard developers,

It's Chih-Chiaing from Alexey's lab at University of Michigan, we are
interested in processing DIA data and wanted to learn more about MSE. I
downloaded the files from the following link and tried using msconvert to
get mzXML files. But all the spectra converted were labeled as MS1 and the
converted mzXML files were much smaller than the RAW files. So I guess
probably the MSE (MS2) spectra need to extracted in different ways. Does
proteowizard provide any way to convert MSE data in mzXML format with MS1
and MS2 spectra?

http://proteomecentral.proteomexchange.org/cgi/GetDataset?ID=PXD000150

Thanks,
-- 
Chih-Chiang Tsou,
Program in Biomedical Science,
Dep. of Comp. Medicine and Bioinfo. (DCM&B)
University of Michigan Ann Arbor
Medical Science I, 1150 Catherine Street
Ann Arbor, MI 48109