mspeak.hpp File Reference

#include <corelib/ncbimisc.hpp>
#include <objects/omssa/omssa__.hpp>
#include <util/rangemap.hpp>
#include <util/itree.hpp>
#include <set>
#include <iostream>
#include <vector>
#include <deque>
#include <map>
#include <string.h>
#include "msms.hpp"
#include "msladder.hpp"
#include "SpectrumSet.hpp"
#include "omssascore.hpp"

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Classes
class	CMSModInfo
	Class to hold mod information for a hit. More...
class	CMSHit
	class to contain preliminary hits. More...
class	CMZI
	a class for holding an m/z value, intensity, and rank More...
class	CMSPeakList
	class for holding a set of peaks More...
class	CMSPeak
	class to hold spectral data for filtering and statistical characterization More...
class	_MassPeak
class	CMSPeakSet

Macros
#define	MSHITMIN   2
#define	MSPEAKMIN   5
#define	MSBIN   100

Typedefs
typedef AutoPtr< CMSModInfo, ArrayDeleter< CMSModInfo > >	TModInfo
	typedef for holding hit information More...
typedef CMSHit *	TMSHitList
typedef bool(*	TMZIbool) (const CMZI &, const CMZI &, int tol)
	function object for cull iterate More...
typedef deque< CMSPeak * >	TPeakSet
typedef _MassPeak	TMassPeak
typedef CRange< TSignedSeqPos >	TMassRange

Enumerations
enum	EMSPeakListTypes {   eMSPeakListOriginal , eMSPeakListTop , eMSPeakListCharge1 , eMSPeakListCharge2 ,   eMSPeakListCharge3 , eMSPeakListCharge4 , eMSPeakListCharge5 , eMSPeakListCharge6 ,   eMSPeakListCharge7 , eMSPeakListCharge8 , eMSPeakListCharge9 , eMSPeakListCharge10 ,   eMSPeakListCharge11 , eMSPeakListCharge12 , eMSPeakListCharge13 , eMSPeakListCharge14 ,   eMSPeakListCharge15 , eMSPeakListCharge16 , eMSPeakListCharge17 , eMSPeakListCharge18 ,   eMSPeakListCharge19 , eMSPeakListCharge20 , eMSPeakListCharge21 , eMSPeakListCharge22 ,   eMSPeakListCharge23 , eMSPeakListCharge24 , eMSPeakListCharge25 , eMSPeakListCharge26 ,   eMSPeakListCharge27 , eMSPeakListCharge28 , eMSPeakListCharge29 , eMSPeakListCharge30 ,   eMSPeakListChargeMax }
	enum that describes type of peak list More...
enum	EChargeState {   eChargeUnknown , eCharge1 , eChargeNot1 , eCharge2 ,   eCharge3 , eCharge4 , eCharge5 }
enum	EMSPeakListSort { eMSPeakListSortNone , eMSPeakListSortMZ , eMSPeakListSortIntensity }
	enumeration of peak sort order More...

Macro Definition Documentation

MSBIN

#define MSBIN   100

Definition at line 525 of file mspeak.hpp.

MSHITMIN

#define MSHITMIN   2

Definition at line 518 of file mspeak.hpp.

MSPEAKMIN

#define MSPEAKMIN   5

Definition at line 522 of file mspeak.hpp.

Typedef Documentation

TMassPeak

typedef _MassPeak TMassPeak

Definition at line 1346 of file mspeak.hpp.

TMassRange

typedef CRange<TSignedSeqPos> TMassRange

Definition at line 1350 of file mspeak.hpp.

TModInfo

typedef AutoPtr<CMSModInfo, ArrayDeleter<CMSModInfo> > TModInfo

typedef for holding hit information

Definition at line 169 of file mspeak.hpp.

TMSHitList

typedef CMSHit* TMSHitList

Definition at line 515 of file mspeak.hpp.

TMZIbool

typedef bool(* TMZIbool) (const CMZI &, const CMZI &, int tol)

function object for cull iterate

Definition at line 533 of file mspeak.hpp.

TPeakSet

typedef deque<CMSPeak *> TPeakSet

Definition at line 1333 of file mspeak.hpp.

Enumeration Type Documentation

EChargeState

enum EChargeState

Enumerator
eChargeUnknown
eCharge1
eChargeNot1
eCharge2
eCharge3
eCharge4
eCharge5

Definition at line 535 of file mspeak.hpp.

EMSPeakListSort

enum EMSPeakListSort

enumeration of peak sort order

Enumerator
eMSPeakListSortNone
eMSPeakListSortMZ
eMSPeakListSortIntensity

Definition at line 552 of file mspeak.hpp.

EMSPeakListTypes

enum EMSPeakListTypes

enum that describes type of peak list

Enumerator
eMSPeakListOriginal
eMSPeakListTop
eMSPeakListCharge1
eMSPeakListCharge2
eMSPeakListCharge3
eMSPeakListCharge4
eMSPeakListCharge5
eMSPeakListCharge6
eMSPeakListCharge7
eMSPeakListCharge8
eMSPeakListCharge9
eMSPeakListCharge10
eMSPeakListCharge11
eMSPeakListCharge12
eMSPeakListCharge13
eMSPeakListCharge14
eMSPeakListCharge15
eMSPeakListCharge16
eMSPeakListCharge17
eMSPeakListCharge18
eMSPeakListCharge19
eMSPeakListCharge20
eMSPeakListCharge21
eMSPeakListCharge22
eMSPeakListCharge23
eMSPeakListCharge24
eMSPeakListCharge25
eMSPeakListCharge26
eMSPeakListCharge27
eMSPeakListCharge28
eMSPeakListCharge29
eMSPeakListCharge30
eMSPeakListChargeMax

Definition at line 63 of file mspeak.hpp.