pwiz::proteome::Fragmentation Class Reference

provides fragment ion masses for a peptide More...

#include <Peptide.hpp>

List of all members.

Public Member Functions
	Fragmentation (const Peptide &peptide, bool monoisotopic, bool modified)
	Fragmentation (const Fragmentation &)
	~Fragmentation ()
double	a (size_t length, size_t charge=0) const
	returns the a ion of length <length>; example: a(1) returns the a1 ion if <charge> = 0: returns neutral mass if <charge> > 0: returns charged m/z
double	b (size_t length, size_t charge=0) const
	returns the b ion of length <length> example: b(1) returns the b1 ion if <charge> = 0: returns neutral mass if <charge> > 0: returns charged m/z
double	c (size_t length, size_t charge=0) const
	returns the c ion of length <length> example: c(1) returns the c1 ion if <charge> = 0: returns neutral mass if <charge> > 0: returns charged m/z
double	x (size_t length, size_t charge=0) const
	returns the x ion of length <length> example: x(1) returns the x1 ion if <charge> = 0: returns neutral mass if <charge> > 0: returns charged m/z
double	y (size_t length, size_t charge=0) const
	returns the y ion of length <length> example: y(1) returns the y1 ion if <charge> = 0: returns neutral mass if <charge> > 0: returns charged m/z
double	z (size_t length, size_t charge=0) const
	returns the z ion of length <length> example: z(1) returns the z1 ion if <charge> = 0: returns neutral mass if <charge> > 0: returns charged m/z
double	zRadical (size_t length, size_t charge=0) const
	returns the z radical ion of length <length> example: zRadical(1) returns the z1* ion if <charge> = 0: returns neutral mass if <charge> > 0: returns charged m/z

Private Attributes
boost::shared_ptr< Impl >	impl_

---

Detailed Description

provides fragment ion masses for a peptide

Definition at line 120 of file Peptide.hpp.

---

Constructor & Destructor Documentation

pwiz::proteome::Fragmentation::Fragmentation	(	const Peptide &	peptide,
		bool	monoisotopic,
		bool	modified
	)

pwiz::proteome::Fragmentation::Fragmentation

(

const Fragmentation &

)

pwiz::proteome::Fragmentation::~Fragmentation

(

)

---

Member Function Documentation

double pwiz::proteome::Fragmentation::a	(	size_t	length,
		size_t	charge = 0
	)		const

returns the a ion of length <length>; example: a(1) returns the a1 ion if <charge> = 0: returns neutral mass if <charge> > 0: returns charged m/z

Referenced by fragmentTest(), and writeFragmentation().

double pwiz::proteome::Fragmentation::b	(	size_t	length,
		size_t	charge = 0
	)		const

returns the b ion of length <length> example: b(1) returns the b1 ion if <charge> = 0: returns neutral mass if <charge> > 0: returns charged m/z

Referenced by fragmentTest(), and writeFragmentation().

double pwiz::proteome::Fragmentation::c	(	size_t	length,
		size_t	charge = 0
	)		const

returns the c ion of length <length> example: c(1) returns the c1 ion if <charge> = 0: returns neutral mass if <charge> > 0: returns charged m/z

Referenced by fragmentTest(), and writeFragmentation().

double pwiz::proteome::Fragmentation::x	(	size_t	length,
		size_t	charge = 0
	)		const

returns the x ion of length <length> example: x(1) returns the x1 ion if <charge> = 0: returns neutral mass if <charge> > 0: returns charged m/z

Referenced by fragmentTest(), and writeFragmentation().

double pwiz::proteome::Fragmentation::y	(	size_t	length,
		size_t	charge = 0
	)		const

returns the y ion of length <length> example: y(1) returns the y1 ion if <charge> = 0: returns neutral mass if <charge> > 0: returns charged m/z

Referenced by fragmentTest(), and writeFragmentation().

double pwiz::proteome::Fragmentation::z	(	size_t	length,
		size_t	charge = 0
	)		const

returns the z ion of length <length> example: z(1) returns the z1 ion if <charge> = 0: returns neutral mass if <charge> > 0: returns charged m/z

Referenced by fragmentTest(), and writeFragmentation().

double pwiz::proteome::Fragmentation::zRadical	(	size_t	length,
		size_t	charge = 0
	)		const

returns the z radical ion of length <length> example: zRadical(1) returns the z1* ion if <charge> = 0: returns neutral mass if <charge> > 0: returns charged m/z

---

Member Data Documentation

boost::shared_ptr<Impl> pwiz::proteome::Fragmentation::impl_

private

Definition at line 173 of file Peptide.hpp.

---

The documentation for this class was generated from the following file:

• /Users/parag/_Research/pwiz/svn/trunk/pwiz/pwiz/data/proteome/Peptide.hpp