Thanks for the suggestion, Luis. -Han
On Wednesday, March 25, 2015 at 5:31:19 PM UTC-4, Luis wrote: > > Hello Han, > > There is no such thing in TPP, or anywhere else that I know of, for that > matter. If no one else on this list can help, perhaps you can contact the > developers of Mayu directly; they may have something: > http://proteomics.ethz.ch/muellelu/web/LukasReiter/Mayu/ > > Cheers, > --Luis > > > On Tue, Mar 24, 2015 at 9:55 PM, 钟传奇 <[email protected] <javascript:>> > wrote: > >> As I know, MAYU can be applied to the iProphet output, not ProteinProphet >> output. >> >> On Tue, Mar 24, 2015 at 10:48 PM, hh1985 <[email protected] >> <javascript:>> 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 [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/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] <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/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 http://groups.google.com/group/spctools-discuss. For more options, visit https://groups.google.com/d/optout.
