through description of readw and msconvert
but cannot find the option.
Could you help me out. I guess I have overseen something.
Thanks for the help.
regards
Dominik
--
Dr. Dominik Schwudke
Group Leader
National Centre for Biological Sciences
Tata Institute of Fundamental Research
GKVK, Bellary Road
Hallo,
not sure if it is of help for your problem but:
the Software RecalOfline from Thermo (should be part of FT-programs)
allows to split raw files according to the scan filter.
It is even mention that one should be able to run that program over
command line what never worked in my hands..
ot; doesnt
> seem to output *.out files (or pepXML files). I am more interested in
> individual peptide hits but dont see how one can get 1st and 2nd hit
> as we see in *.out file using Bioworks).
> I would really appreciate your feedback on this.
> Thanks,
> ~Nikhil.
>
> >
Otherwise, the program first will try to obtain a more accurate
> mass from the "Monoisotopic M/Z:" "trailer value"
>
>
> -Natalie
>
>
>
>
>
> On Sep 8, 2009, at 11:09 AM, Dominik Schwudke wrote:
>
>
>> Dear Jimmy,
>
Dear Natalie,
Thank You for your detailed answer. I will look into msconvert.
Im actually not sure about this part:
> [Advanced option, default OFF] --precursorFromFilterLine: only
> try to get the precursor MZ value from the Thermo
> "filterline" text; only use this if you have a goo
ries? Is it
>> possible to switch this off?
>>
>> We would appriciate very much your help on that, since this incorrect
>> notion of precursor masses in the mzXML leads to wrong results in our
>> software. Writing a workaround on that would be very time consuming.
>&
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Is somewhere a MS/MS grouping default set? How can I fix this error.
best
Dominiik
--
Dr. Dominik Schwudke
Group Leader
National Centre for Biological Sciences
Tata Institute of
