Hi Mike
Thanks for your fast answer! I am sorry I couldn't get back to you earlier.
I understand protein inference must be carried out prior to running
StPeter. However, I still don't understand the Spectral Index (SI)
definition from the original Griffin
paper
Thanks a lot Mike!
And what if I want to convert RAW files to mzML in Linux? The Linux version
of ProteoWizard tools says that they cannot process vendor files (such as
RAW). Is there an alternative? I have already tried using msconvert with
wine but didn't work? Is there a conversion tool
No, there isn't a native tool for Linux that reads vendor formats.
Unfortunately, vendor formats are proprietary and requires the vendor
drivers to access those files and convert them. All of those drivers are
Windows only, as the vendors have decided that is their platform of choice.
Thermo
Hi Panos,
mzIMLDemo is a demonstration application of the mzIdentML support tools in
TPP. It is non-essential and still in development, so you're right, it
isn't necessary. That being said, it shouldn't be allowed to halt the build
process. I suspect this will be fixed in TPP release 5.1.1.
Hi Antonio,
Sure, I can see where there may be some confusion. Peptide k is not the
precursor ion, it is merely a sequence identification. That sequence is
quantified based on the MS/MS spectra that match to it.
For example, suppose after doing peptide validation and protein inference,
you
Hi again Mike,
I did try "make clean" and recompiling from the beginning but without luck.
I even set up an Ubuntu VM (my machine runs Debian) and used the step by
step installation guide for Ubuntu that you have in the wiki. I also tried
different g++/gcc versions (4.8, 4.9, 6.0, 7.0, 8.0)
Yes, I did think of setting up a Windows VM for such conversions, and maybe
it's unavoidable after all...
Thanks a lot for your time!
P
On Saturday, 2 June 2018 19:06:48 UTC+3, Michael Hoopmann wrote:
>
> No, there isn't a native tool for Linux that reads vendor formats.
> Unfortunately,
