As I know, MAYU can be applied to the iProphet output, not ProteinProphet output.
On Tue, Mar 24, 2015 at 10:48 PM, hh1985 <hh.earlyd...@gmail.com> wrote: > Hi, > > I am planning to do LFQ using ProteinQuantifier from OpenMS, which can > take ProteinProphet results as the identification input. However, for the > data (human proteome data from PRIDE) that I am processing, there is a huge > gap between output from ProteinProphet and MAYU, and I am thinking about > using MAYU (if reasonable) to filter the protein IDs. My question is, is > there any way to convert MAYU's result into protXML? > > > PS: For 24 runs, > ProteinProphet gives 5245 entries (1966 single hits) with IPROPHET option > MAYU produces > mFDR IP/PPs protFDR TP_protID TP_protIDs TP_protIDns protFDRns 0 > 0.999996 0 6867 2918 3949 0 0.001 0.789611 0.006219 11332 3851 7481 > 0.001598 0.002 0.387495 0.013356 11639 3869 7771 0.00378 0.003 0.172753 > 0.020108 11917 3956 7963 0.005627 0.004 0.115397 0.026528 12003 3953 8052 > 0.007476 0.005 0.073709 0.033135 12090 3946 8146 0.008813 0.006 0.050291 > 0.039517 12185 3964 8223 0.010479 0.007 0.037582 0.044578 12268 3971 8299 > 0.011241 0.008 0.028534 0.051116 12322 3953 8371 0.01285 0.009 0.022003 > 0.056202 12415 3981 8436 0.014644 0.01 0.017422 0.062456 12480 3989 8494 > 0.015794 > Thanks, > > -Han > > . > > -- > 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 spctools-discuss+unsubscr...@googlegroups.com. > To post to this group, send email to spctools-discuss@googlegroups.com. > Visit this group at http://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 spctools-discuss+unsubscr...@googlegroups.com. To post to this group, send email to spctools-discuss@googlegroups.com. Visit this group at http://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
