semiglobalalignment.h File Reference

protein to spectrum alignment More...

#include <boost/numeric/ublas/matrix.hpp>
#include "spomsspectrum.h"
#include "../../protein/protein.h"
#include "scorevalues.h"
#include "locationsaver.h"
#include "scenario.h"

Go to the source code of this file.

Classes
struct	pappso::specpeptidoms::KeyCell
struct	pappso::specpeptidoms::Alignment
class	pappso::specpeptidoms::SemiGlobalAlignment

Namespaces
namespace	pappso
	tries to keep as much as possible monoisotopes, removing any possible C13 peaks and changes multicharge peaks to monocharge
namespace	pappso::specpeptidoms

Detailed Description

protein to spectrum alignment

Date

24/03/2025

Author

Aurélien Berthier

C++ implementation of the SpecPeptidOMS algorithm described in : (1) Benoist, É.; Jean, G.; Rogniaux, H.; Fertin, G.; Tessier, D. SpecPeptidOMS Directly and Rapidly Aligns Mass Spectra on Whole Proteomes and Identifies Peptides That Are Not Necessarily Tryptic: Implications for Peptidomics. J. Proteome Res. 2025. https://doi.org/10.1021/acs.jproteome.4c00870.

Definition in file semiglobalalignment.h.