types.h File Reference

#include "../../amino_acid/aa.h"

Go to the source code of this file.

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

Enumerations
enum class	pappso::specpeptidoms::ScoreType : std::uint8_t {   pappso::specpeptidoms::foundDouble = 0 , pappso::specpeptidoms::found = 1 , pappso::specpeptidoms::foundShiftDouble = 2 , pappso::specpeptidoms::foundShift = 3 ,   pappso::specpeptidoms::notFound = 4 , pappso::specpeptidoms::init = 5 }
enum class	pappso::specpeptidoms::AlignType {   pappso::specpeptidoms::found , pappso::specpeptidoms::shift , pappso::specpeptidoms::perfectShift , pappso::specpeptidoms::notFound ,   pappso::specpeptidoms::init }

Functions
const uint	pappso::specpeptidoms::MAX_SAVED_ALIGNMENTS (5)
const uint	pappso::specpeptidoms::ALIGNMENT_SURPLUS (5)
const int	pappso::specpeptidoms::MIN_ALIGNMENT_SCORE (15)
const uint	pappso::specpeptidoms::MAX_RETURNED_RESULTS (2)

Detailed Description

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 types.h.