Hi Will,
Glad you got this to work!
A potentially quicker solution is to enter those extra flags in the
"additional options" box in Petunia:
[image: image.png]
You can find a full set of available options at the Proteowizard msconvert
info page:
Okay I got it to work. For the record, my solution was the following:
1. Rather than use the msConvert packaged with the TPP, I downloaded it
separately from ProteoWizard.
2. I converted my RAW file with the following parameters:
- [image: SIM_msConvert.PNG]
- (I am not sure
Good catch, I will try to redo the RAW conversion to include my MS1 scans.
Thanks Jimmy!
-Will
On Fri, Apr 7, 2023 at 12:50 PM Jimmy Eng wrote:
> Will,
>
> XPRESS extracts precursor intensities from MS1 scans and your mzXML file
> contains only MS/MS scans. So that's why XPRESS is failing
Will,
XPRESS extracts precursor intensities from MS1 scans and your mzXML file
contains only MS/MS scans. So that's why XPRESS is failing because it's
expecting to parse MS1 scans which aren't present in this file.
Jimmy
On Fri, Apr 7, 2023 at 8:57 AM Will Comstock wrote:
> Hi all,
>
> I'm
Hi all,
I'm trying to use tSIM-ddMS2 to identify specific peptides in my sample,
but I also want SILAC quantification of those peptides using XPRESS. I've
made sure the MS1 isolation window is wide enough to see both Light and
Heavy peptide peaks for everything in my inclusion list (30
