Ok - convenient option and sounds easy. Didn't think about that. Could you send me copy? I don't have another machine with TPP...
Thanks!! R On Thu, Mar 1, 2012 at 4:51 PM, Luis Mendoza < [email protected]> wrote: > Hi Rebekah, > Since this is strictly a viewer issue, you may also just install the > old viewer so you can take advantage of the motif coloring and stats > while we come up with a fix. You can either copy the protxml2html.pl > file from another machine that has the TPP (pre-4.5.1) installed into > the tpp-bin directory, or we can give you one. > Cheers, > --Luis > > > On Wed, Feb 29, 2012 at 12:39 PM, Rebekah Dawson <[email protected]> > wrote: > > I see the modification N[115], but not the color coding and also the > > calculation at the bottom of the page for # NxS/T peptides vs total # > > peptides is empty. I find this to be very useful when calculating > > specificity of our capturing method. If i know it is a bug, then I'll > wait > > for a fix. Just wanted to make sure I wasn't supposed to be clicking any > > more buttons to get it to show up. > > > > Thanks! > > Rebekah > > > > > > On Wed, Feb 29, 2012 at 9:46 AM, [email protected] > > <[email protected]> wrote: > >> > >> Hello Ruby, > >> > >> I believe this problem is only with the ProteinProphet viewer not the > >> modelling. Someone else had reported this problem also but it has not > been > >> fixed in this release. The problem is in the coloring off the motif > only. > >> You should still see the motif in the peptides you identify. > >> > >> -David > >> > >> Sent from my Android Device > >> > >> > >> ----- Reply message ----- > >> From: "Ruby" <[email protected]> > >> To: "spctools-discuss" <[email protected]> > >> Subject: [spctools-discuss] GLYC not working in 4.5.2? > >> Date: Wed, Feb 29, 2012 6:51 am > >> > >> > >> I have been using the GLYC command in TPP 4.4.0 for more than a year > >> with no problem. I recently upgraded to TPP 4.5.2 and can't seem to > >> get the GLYC command to work for ProteinProphet. I have the "N- > >> glycosylation data (color NXS/T)" option checked in petunia when doing > >> ProteinProphet processing, and in the ProteinProphet header the "NxS/ > >> T" box is checked. However, I do NOT see any pink highlighted N[115] > >> in the peptides like I used to see nor does it calculate the # of > >> glycopeptides at the bottom of the page - though most of my peptides > >> do contain this modification. I am selecting the option to use the > >> "Use N-glyc motif information" when I do the peptideprophet. > >> > >> Is there something else I"m supposed to be doing to get this to work > >> in the new update of TPP? > >> > >> Thanks > >> Ruby > >> > >> -- > >> 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. > > -- > 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.
