Hi David, Am happy to generate some pepXMLs from the tutorial data, but assuming you mean the stuff at:
ftp://ftp.peptideatlas.org/pub/PeptideAtlas/Repository/TPP_Demo2009/ ... I'm not sure that's the best to work with for Morpheus. It's CID Ion-trap MS/MS, which is not Morpheus' target. Morpheus doesn't work as well as other algorithms on low-res MS/MS so I'm not sure if anyone would want to use it like that. I grabbed two of the result sets from the Coon lab site - Yeast analysis with FT HCD or IT CID. The distributions of Morpheus scores are very different. The CID data doesn't even look like target and decoy matches are separable, so I think high-res MS/MS is a must. See attached. DT On Thursday, February 6, 2014 3:44:08 PM UTC-6, David Shteynberg wrote: > > I was dabbling in this, but running into some issues with morpheus slowing > my machine to a point where I was unable to do any other work so I moved to > another project. However, I am certainly still interested in this, but I > know that pepXML coming out of morpheus may need some work. If you'd be > willing to generate some pepXML's from the tutorial data and work with me > to correct the pepXML issues I should be able to model the results quite > quickly with PeptideProphet. Please let me know if that sounds good to you. > > Cheers, > -David > > > On Thu, Feb 6, 2014 at 12:08 PM, Eric Deutsch > <[email protected]<javascript:> > > wrote: > >> Hi Dave, at ISB we are not planning this, so please go ahead and let us >> know how it goes! >> >> >> >> Regards, >> >> Eric >> >> >> >> >> >> *From:* [email protected] <javascript:> [mailto: >> [email protected] <javascript:>] *On Behalf Of *Dave Trudgian >> *Sent:* Thursday, February 06, 2014 12:02 PM >> *To:* [email protected] <javascript:> >> *Subject:* [spctools-discuss] Re: support for Morpheus search algorithm >> in TPP >> >> >> >> Craig, just wondering if you or anyone else is working on this? If not I >> was thinking I would have a go at putting in a Morpheus model for >> PeptideProphet towards the end of next week. >> >> >> >> Dave Trudgian >> >> On Saturday, November 30, 2013 4:37:30 PM UTC-6, Craig Wenger wrote: >> >> Is there a mechanism for adding support for a new search algorithm to the >> various TPP tools? A few users have requested TPP compatibility for the >> Morpheus <http://morpheus-ms.sourceforge.net/> search algorithm. It >> already outputs pepXML. >> >> >> >> -Craig >> >> >> >> -- >> You received this message because you are subscribed to the Google Groups >> "spctools-discuss" group. >> To unsubscribe from this group and stop receiving emails from it, send an >> email to [email protected] <javascript:>. >> To post to this group, send email to >> [email protected]<javascript:> >> . >> Visit this group at http://groups.google.com/group/spctools-discuss. >> For more options, visit https://groups.google.com/groups/opt_out. >> >> -- >> You received this message because you are subscribed to the Google Groups >> "spctools-discuss" group. >> To unsubscribe from this group and stop receiving emails from it, send an >> email to [email protected] <javascript:>. >> To post to this group, send email to >> [email protected]<javascript:> >> . >> Visit this group at http://groups.google.com/group/spctools-discuss. >> For more options, visit https://groups.google.com/groups/opt_out. >> > > -- You received this message because you are subscribed to the Google Groups "spctools-discuss" group. To unsubscribe from this group and stop receiving emails from it, send an email to [email protected]. To post to this group, send email to [email protected]. Visit this group at http://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/groups/opt_out.
<<attachment: FT_HCD_Morpheus.png>>
<<attachment: IT_CID_Morpheus.png>>
