Hello, I also can't get msconvert to perform peak picking from an MGF file. Is that possible? I'm experimenting with signal profile modelling and thus need a tool for converting a calculated profile into a peak list. Of course, since the signal isn't obtained with any instrument, I don't use any vendor libraries, either. I tried packing the profile data into mzXML as a binary insertion, but peak picking with msconvert from mzXML doesn't work so far: no peaks are detected. What can be the problem?
On Feb 10, 10:42 pm, Joe Slagel <[email protected]> wrote: > I believe it is available using peakPicking true, but you can confirm by > forwarding your question on the Proteowizard mailing list as they are the > developers of msconvert. > > https://lists.sourceforge.net/lists/listinfo/proteowizard-support > > > > On Thu, Feb 10, 2011 at 11:19 AM, John Prince <[email protected]> wrote: > > Is centroiding (peak picking) without vendor software implemented? > > > The interface for doing this is clearly suggested in the msconvert > > help: > > peakPicking prefer_vendor:<true|false> int_set(MS levels) > > > I run this kind of command on a system without thermo libraries: > > ./pwiz_bin/msconvert Hek_cells_100904050914.mzXML --mzXML -z -- > > filter "peakPicking false [1]" -o centroided_by_pwiz > > > It generates an output file that is identical to the profile file, but > > with the added line: > > <dataProcessing centroided="1"> > > > So, it would appear that no vendor-less centroiding is yet > > implemented. Can this be confirmed? > > > Much thanks for all the hard work on an outstanding tool set in > > general. > > > --John > > > -- > > You received this message because you are subscribed to the Google Groups > > "spctools-discuss" group. > > To post to this group, send email to [email protected]. > > To unsubscribe from this group, send email to > > [email protected]. > > For more options, visit this group at > >http://groups.google.com/group/spctools-discuss?hl=en. > > -- > Joe Slagel > Institute for Systems Biology > [email protected] > (206) 732-1362 -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To post to this group, send email to [email protected]. To unsubscribe from this group, send email to [email protected]. For more options, visit this group at http://groups.google.com/group/spctools-discuss?hl=en.
