Dear Jane, I cannot help you with the demultiplexing, because I have not used that feature before in MSConvert. But if you do manage to get a regular DIA mzML file out of the conversion you can use the DISCo tool available in the TPP under Tools->DIA->Extract MS2 Fragments that will generate a new mzML file that you can search and analyze with DDA tools. As DISCo has recently seen major improvements I can provide you with a release candidate version if you are interested.
Cheers, -David On Thu, Oct 22, 2020 at 1:08 PM jane n <[email protected]> wrote: > Hi all, > > I have acquired a bunch of files on my Eclipse to build a DIA library > using an 8mz window in overlap mode (ie essentially 4mz windows) and I'm > not clear if the Convert to MzML is demultiplexing to 4mz windows? I've > tried doing it manually in MSconvert but the conversion fails. On the > other hand, do I need to demulitplex? > > Cheers! > -Jane > > -- > You received this message because you are subscribed to the Google Groups > "spctools-discuss" group. > To unsubscribe from this group and stop receiving emails from it, send an > email to [email protected]. > To view this discussion on the web visit > https://groups.google.com/d/msgid/spctools-discuss/af9c2037-59d0-478e-bcfc-d0d09adabd29n%40googlegroups.com > <https://groups.google.com/d/msgid/spctools-discuss/af9c2037-59d0-478e-bcfc-d0d09adabd29n%40googlegroups.com?utm_medium=email&utm_source=footer> > . > -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To unsubscribe from this group and stop receiving emails from it, send an email to [email protected]. To view this discussion on the web visit https://groups.google.com/d/msgid/spctools-discuss/CAGJJY%3D97cbNtG3XjUbopu-seY-rU4bj8peX-UG1cL948Tgi17g%40mail.gmail.com.
