EdwardsLippertIterator that only retrieves tryptic sequences. More...
#include <OpenMS/CHEMISTRY/EdwardsLippertIteratorTryptic.h>
Inheritance diagram for EdwardsLippertIteratorTryptic:
Public Member Functions | |
| EdwardsLippertIteratorTryptic () | |
| default constructor More... | |
| EdwardsLippertIteratorTryptic (const EdwardsLippertIteratorTryptic &rhs) | |
| copy constructor More... | |
| virtual | ~EdwardsLippertIteratorTryptic () |
| destructor More... | |
| EdwardsLippertIteratorTryptic & | operator= (const EdwardsLippertIteratorTryptic &rhs) |
| assignment operator More... | |
| virtual bool | isDigestingEnd (char aa1, char aa2) |
| indicates if trypsin will cat between the two amino acids More... | |
 Public Member Functions inherited from EdwardsLippertIterator | |
| EdwardsLippertIterator () | |
| Constructor. More... | |
| EdwardsLippertIterator (const EdwardsLippertIterator &) | |
| Copy Constructor. More... | |
| virtual | ~EdwardsLippertIterator () |
| Destructor. More... | |
| virtual FASTAEntry | operator* () |
| * operator for getting the value of the iterator More... | |
| virtual PepIterator & | operator++ () |
| operator ++ for postincrement More... | |
| virtual PepIterator * | operator++ (int i) |
| operator ++ for preincrement More... | |
| virtual void | setFastaFile (const String &f) |
| setter for fasta file More... | |
| virtual String | getFastaFile () |
| getter for FASTA file More... | |
| virtual void | setTolerance (double t) |
| setter for tolerance More... | |
| virtual double | getTolerance () |
| getter for tolerance More... | |
| virtual void | setSpectrum (const std::vector< double > &s) |
| setter for spectrum More... | |
| virtual const std::vector< double > & | getSpectrum () |
| getter for spectrum More... | |
| virtual bool | begin () |
| initializing iterator More... | |
| virtual bool | isAtEnd () |
| indicates whether iterator is at end More... | |
| Public Member Functions inherited from PepIterator | |
| PepIterator () | |
| constructor More... | |
| virtual | ~PepIterator () |
| destructor More... | |
| PepIterator (const PepIterator &source) | |
| copy constructor More... | |
Static Public Member Functions | |
| static const String | getProductName () |
| needed by Factory More... | |
| static PepIterator * | create () |
| needed by Factory More... | |
| Static Public Member Functions inherited from EdwardsLippertIterator | |
| static const String | getProductName () |
| needed by Factory More... | |
| static PepIterator * | create () |
| needed by Factory More... | |
| Static Public Member Functions inherited from PepIterator | |
| static void | registerChildren () |
| all children has to be registered here More... | |
Additional Inherited Members | |
| Public Types inherited from EdwardsLippertIterator | |
| typedef std::pair< String, String > | FASTAEntry |
| Public Types inherited from PepIterator | |
| typedef std::pair< String, String > | FASTAEntry |
| Protected Member Functions inherited from EdwardsLippertIterator | |
| virtual std::string | next_ () |
| getting the next candidate More... | |
| bool | hasNext_ () |
| indicates if there will be a next element More... | |
| void | goToNextAA_ () |
| finds the next starting position where a digesting enzyme will cut the sequence More... | |
| virtual bool | isInSpectrum_ (double &mass) |
| indicates if a mass is in spectrum More... | |
| Protected Attributes inherited from EdwardsLippertIterator | |
| String | f_file_ |
| fasta file location More... | |
| std::string | actual_pep_ |
| actual peptide More... | |
| std::vector< double > | spec_ |
| given spectrum More... | |
| double | tol_ |
| tolerance More... | |
| double | masse_ [255] |
| mass table More... | |
| bool | is_at_end_ |
| indicates if iterator is at end More... | |
| PepIterator * | f_iterator_ |
| FastaIterator. More... | |
| FASTAEntry | f_entry_ |
| actual fasta entry More... | |
| unsigned int | b_ |
| unsigned int | e_ |
| to ints representing a position within the actual string (b = begin, e = end) More... | |
| double | m_ |
| double | massMax_ |
| mass and maximum masse More... | |
Detailed Description
EdwardsLippertIterator that only retrieves tryptic sequences.
Constructor & Destructor Documentation
default constructor
| EdwardsLippertIteratorTryptic | ( | const EdwardsLippertIteratorTryptic & | rhs | ) |
copy constructor
|
virtual |
destructor
Member Function Documentation
|
inlinestatic |
needed by Factory
- Returns
- pointer to new object
|
inlinestatic |
needed by Factory
- Returns
- const string name of class
|
virtual |
indicates if trypsin will cat between the two amino acids
- Parameters
-
aa1 first amino acid aa2 second amino acid
Reimplemented from EdwardsLippertIterator.
| EdwardsLippertIteratorTryptic& operator= | ( | const EdwardsLippertIteratorTryptic & | rhs | ) |
assignment operator