pappso::specpeptidoms::Location Struct Reference

#include <locationsaver.h>

Public Member Functions
QString	getPeptideString () const
	convenient function to get peptide sequence from location

Public Attributes
std::size_t	beginning
	start position of the subsequence
std::size_t	length
	length of the subsequence
int	tree
int	score
const SpOMSProtein *	proteinPtr
	Protein accession.

Detailed Description

Definition at line 48 of file locationsaver.h.

Member Function Documentation

getPeptideString()

QString pappso::specpeptidoms::Location::getPeptideString

(

)

const

convenient function to get peptide sequence from location

Definition at line 44 of file locationsaver.cpp.

{
  std::size_t length2;
  if((qsizetype)(beginning + length) <= proteinPtr->size())
    {
      length2 = length;
    }
  else
    {
      length2 = proteinPtr->size() - beginning;
    }
  return proteinPtr->getSequence().sliced(proteinPtr->size() - beginning - length2, length2);
}

References beginning, length, and proteinPtr.

Member Data Documentation

beginning

std::size_t pappso::specpeptidoms::Location::beginning

start position of the subsequence

Definition at line 58 of file locationsaver.h.

Referenced by pappso::specpeptidoms::LocationSaver::LocationSaver(), getPeptideString(), and pappso::specpeptidoms::LocationSaver::resetLocationSaver().

length

std::size_t pappso::specpeptidoms::Location::length

length of the subsequence

Definition at line 62 of file locationsaver.h.

Referenced by pappso::specpeptidoms::LocationSaver::LocationSaver(), getPeptideString(), and pappso::specpeptidoms::LocationSaver::resetLocationSaver().

proteinPtr

const SpOMSProtein* pappso::specpeptidoms::Location::proteinPtr

Protein accession.

Definition at line 75 of file locationsaver.h.

Referenced by pappso::specpeptidoms::LocationSaver::LocationSaver(), getPeptideString(), and pappso::specpeptidoms::LocationSaver::resetLocationSaver().

score

int pappso::specpeptidoms::Location::score

@TODO number of matching peak ?

Definition at line 71 of file locationsaver.h.

Referenced by pappso::specpeptidoms::LocationSaver::LocationSaver(), pappso::specpeptidoms::LocationSaver::locationCompare(), and pappso::specpeptidoms::LocationSaver::resetLocationSaver().

tree

int pappso::specpeptidoms::Location::tree

index of the alignment tree

Definition at line 67 of file locationsaver.h.

Referenced by pappso::specpeptidoms::LocationSaver::LocationSaver(), and pappso::specpeptidoms::LocationSaver::resetLocationSaver().

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The documentation for this struct was generated from the following files:

• pappsomspp/core/processing/specpeptidoms/locationsaver.h
• pappsomspp/core/processing/specpeptidoms/locationsaver.cpp