Thanks! I'll give that a try. -R On Tue, Mar 6, 2012 at 6:56 PM, Luis Mendoza < [email protected]> wrote:
> Hi Rebekah, > This option is still listed as "experimental", but we will try to add > it to Petunia for the next release. Your hunch to use the "-w" string > in the additional command-line options was on the right track; > unfortunately, this page uses another program to run ASAPRatio (called > xinteract), and thus the parameter format will not work for this case. > > For the time being, your best option will be to run the tools up to > PeptideProphet via Petunia, then switch over to the command-line to > run ASAPRatioPeptideParser (with desired parameters) on the > interact.pep.xml file via the command-line. To find out what > parameters to use, simply type "ASAPRatioPeptideParser " in the > command-line to get a usage statement. You can then go back to > Petunia to run iProphet, ProteinProphet, etc after this is done. > > Cheers, > --Luis > > > On Mon, Mar 5, 2012 at 1:46 PM, Ruby <[email protected]> wrote: > > Hi- > > I currently use ASAPRatio to quantify SILAC samples. I have TPP 4.5.2 > > and would like to try WaveletQuant. I see in the instructions that it > > can be implemented by using ASAPRatioPeptideParser -w command line > > option. However, can I use the TPP via Petunia GUI to do this? I don't > > have experience using TPP via command line. I tried typing in "-w" > > into the box under PeptideProphet options "Enter additional options to > > pass directly to the command-line (expert use only!)", but this didn't > > seem to do anything different. I don't see a place under ASAPRatio > > Options for this. Any help would be appreciated! > > > > Thanks! > > Rebekah > > > > -- > > 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. > > > > -- > 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. > > -- 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.
