MHCEpitopePredictorSVM.cc File Reference

Wraps NmerSVM into the mhc_epitope_energy scoreterm framework. More...

#include <core/types.hh>
#include <basic/Tracer.hh>
#include <utility/vector1.hh>
#include <core/scoring/mhc_epitope_energy/MHCEpitopePredictorSVM.hh>
#include <core/scoring/nmer/NMerSVMEnergy.hh>

Namespaces
	core
	A class for reading in the atom type properties.
	core::scoring
	core::scoring::mhc_epitope_energy

Functions
static basic::Tracer	core::scoring::mhc_epitope_energy::TR ("core.scoring.mhc_epitope_energy")

Detailed Description

Wraps NmerSVM into the mhc_epitope_energy scoreterm framework.

Just a simple layer over Indigo King's NmerSVM, to meet the MHCEpitopePredictor interface, so can be used within mhc_epitope scoreterm machinery. Note that in the expected usage here, Nmer takes a 15mer, consisting of a core 9mer plus fixed-length 3mer overhangs on both N- and C- termini. The MHCEpitopeEnergy constructs and pads the peptide appropriately.

Author

Chris Bailey-Kellogg, cbk@c.nosp@m.s.da.nosp@m.rtmou.nosp@m.th.e.nosp@m.du; Brahm Yachnin, brahm.nosp@m..yac.nosp@m.hnin@.nosp@m.rutg.nosp@m.ers.e.nosp@m.du