Problem solved, it was just a silly mistake on my part. It turns out my
system's PATH pointed to an older version of msconvert. I changed that and
now it is working perfectly.
Best,
Will
On Tuesday, October 7, 2014 2:49:04 PM UTC-4, Will Fondrie wrote:
>
> Thank you Jimmy,
>
> I'll submit my pr
Thank you Jimmy,
I'll submit my problem to the msconvert support list. When I hear back,
I'll make sure to update here with the answer as well. I'm glad to know
that it won't be a problem searching with Comet.
Best,
Will
On Friday, October 3, 2014 1:14:23 PM UTC-4, Jimmy Eng wrote:
>
> To sear
To search MS3 spectra in Comet, you need to set the parameter "ms_level =
3". Typically the value of that parameter is set to "2" for MS/MS scans.
http://comet-ms.sourceforge.net/parameters/parameters_201402/ms_level.php
Although a few of the ProteoWizard devs are here too, you might consider
Hi all,
We have a RAW file that was collected using MS3 on an Orbitrap Fusion, and
I have a couple questions about processing it.
First, what is the best way to convert the RAW file to mzML, so that it can
be searched with Comet or one of the other TPP search engines? I've tried
using the late
