I can't find the string "FPKM=" anywhere in the database, so perhaps it's an erroneous message. My version is TPP v5.0.0a5 downloaded on 3/10/2016
On Mon, Apr 4, 2016 at 10:39 AM, David Shteynberg < [email protected]> wrote: > Hello Jason, > > In an earlier version of iProphet FPKM message was being printed > erroneously. Does the peff database actually contain "FPKM=" in the > description? If the FPKM model was actually used you would have an FPKM > model reported in the pepXML file and the models viewer should display it. > > Cheers, > -David > > On Mon, Apr 4, 2016 at 7:16 AM, Jason Winget <[email protected]> wrote: > >> I've done several searches using the nextprot_all peff database from >> ftp://ftp.nextprot.org/pub/current_release/peff/ >> >> At the iProphet step I see the message that the FPKM model is being >> activated: >> >> FPKM values are available, to disable rerun with option NOFPKM ... >> >> >> This is probably due to the overloading of the ID line in the PEFF format >> to include mods & sNPs triggering whatever parse rules are used to find >> FPKMs. >> >> It's not a big deal to include the NOFPKM flag for now, but it may be >> useful in the future to refine the automatic parsing of FPKM values. >> >> -- >> 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 https://groups.google.com/group/spctools-discuss. >> For more options, visit https://groups.google.com/d/optout. >> > > -- > You received this message because you are subscribed to a topic in the > Google Groups "spctools-discuss" group. > To unsubscribe from this topic, visit > https://groups.google.com/d/topic/spctools-discuss/uO9Wdd_CjDI/unsubscribe > . > To unsubscribe from this group and all its topics, send an email to > [email protected]. > To post to this group, send email to [email protected]. > Visit this group at https://groups.google.com/group/spctools-discuss. > For more options, visit https://groups.google.com/d/optout. > -- 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 https://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
