Hi Brian,
Thanks!
I have uploaded my mascot search file (F030337.dat).
Fay
On Fri, Jun 18, 2010 at 2:52 PM, Brian Pratt brian.pr...@insilicos.comwrote:
Hard to say what's going on. Perhaps you could upload your new mascot
result file to the files area at
Brian,
Thanks for looking into my search file.
Anything I can do now to fix the first problem?
Sorry for uploading the file to the wrong place. I did what the link, how
to upload files to the SPC team, describes at
http://groups.google.com/group/spctools-discuss?hl=en. Couldn't believe I
Hi Brian,
I ran the Mascot search again with trypsin as enzyme, instead of
tryspin/P. The .dat file was able to convert to .pep.xml file successfully
(cool!). Well, there is a warning at the end of the command lines, and I
don't know how important this is.
...
333. opening
Hi Jimmy,
Yes, you are right. SSM411 is how I named my sample, and F030382 is the .DAT
file name generated by MASCOT.
I have renamed them by SSM411.*.
I didn't convert the .mgf file using MzXML2Search ealier. I used the pkl
files generated by PLGS (Waters) from .raw data to do the Mascot
Thanks! It worked! Cool!
I used a different fraction, and tried several numbers for N (i.e., 50, 100,
150, 200, 300, 400, 500, 800, 1000).
The results are listed as:
N number (# of identified proteins / # of peptide matches above identity
threshold / # of peptide matches above homology or
