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CycloBranch
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The class representing a sequence. More...
#include <cSequence.h>
Public Member Functions | |
| cSequence () | |
| The constructor. | |
| void | clear () |
| Clear the structure. | |
| void | store (ofstream &os) |
| Store the structure into an output stream. More... | |
| void | load (ifstream &is, int fileversionpart1, int fileversionpart2, int fileversionpart3) |
| Load the structure from an input stream. More... | |
| ePeptideType | getPeptideType () |
| Get peptide type. More... | |
| string & | getSequence () |
| Get sequence. More... | |
| string & | getName () |
| Get name. More... | |
| double | getMinimumRetentionTime () |
| Get minimum retention time. More... | |
| double | getMaximumRetentionTime () |
| Get maximum retention time. More... | |
| string & | getReference () |
| Get reference. More... | |
| void | setPeptideType (ePeptideType peptidetype) |
| Set peptide type. More... | |
| void | setSequence (const string &sequence) |
| Set sequence. More... | |
| void | setName (const string &name) |
| Set name. More... | |
| void | setRetentionTime (double rtmin, double rtmax) |
| Set retention time. More... | |
| void | setReference (const string &reference) |
| Set reference. More... | |
| void | setNTterminalModification (const string &modification) |
| Set N-terminal modification. More... | |
| void | setCTterminalModification (const string &modification) |
| Set C-terminal modification. More... | |
| void | setBranchModification (const string &modification) |
| Set branch modification. More... | |
| string & | getNTterminalModification () |
| Get N-terminal modification. More... | |
| string & | getCTterminalModification () |
| Get C-terminal modification. More... | |
| string & | getBranchModification () |
| Get branch modification. More... | |
| string | getNameWithReferenceAsHTMLString () |
| Get name of sequence as a HTML link to sequence reference. More... | |
| void | setSummaryFormula (const string &formula) |
| Set the summary formula. More... | |
| string | getSummaryFormula () |
| Get the summary formula. More... | |
| bool | isDecoy () |
| Check if sequence/compound is decoy. More... | |
| void | setDecoy (bool decoy) |
| Set decoy flag. More... | |
The class representing a sequence.
| string & cSequence::getBranchModification | ( | ) |
Get branch modification.
| string | name of a branch modification |
| string & cSequence::getCTterminalModification | ( | ) |
Get C-terminal modification.
| string | name of C-terminal modification |
| double cSequence::getMaximumRetentionTime | ( | ) |
Get maximum retention time.
| double | maximum retention time |
| double cSequence::getMinimumRetentionTime | ( | ) |
Get minimum retention time.
| double | minimum retention time |
| string & cSequence::getName | ( | ) |
Get name.
| string | name |
| string cSequence::getNameWithReferenceAsHTMLString | ( | ) |
Get name of sequence as a HTML link to sequence reference.
| string | HTML link |
| string & cSequence::getNTterminalModification | ( | ) |
Get N-terminal modification.
| string | name of N-terminal modification |
| ePeptideType cSequence::getPeptideType | ( | ) |
Get peptide type.
| ePeptideType | peptide type |
| string & cSequence::getReference | ( | ) |
Get reference.
| string | reference |
| string & cSequence::getSequence | ( | ) |
Get sequence.
| string | sequence |
| string cSequence::getSummaryFormula | ( | ) |
Get the summary formula.
| string | summary formula |
| bool cSequence::isDecoy | ( | ) |
Check if sequence/compound is decoy.
| bool | true if sequence is decoy, false otherwise |
| void cSequence::load | ( | ifstream & | is, |
| int | fileversionpart1, | ||
| int | fileversionpart2, | ||
| int | fileversionpart3 | ||
| ) |
Load the structure from an input stream.
| is | an input stream |
| fileversionpart1 | first number of .res the file version |
| fileversionpart2 | second number of .res the file version |
| fileversionpart3 | third number of .res the file version |
| void cSequence::setBranchModification | ( | const string & | modification | ) |
Set branch modification.
| modification | name of a branch modification |
| void cSequence::setCTterminalModification | ( | const string & | modification | ) |
Set C-terminal modification.
| modification | name of a C-terminal modification |
| void cSequence::setDecoy | ( | bool | decoy | ) |
Set decoy flag.
| decoy | true if sequence is decoy, false otherwise |
| void cSequence::setName | ( | const string & | name | ) |
Set name.
| name | name |
| void cSequence::setNTterminalModification | ( | const string & | modification | ) |
Set N-terminal modification.
| modification | name of an N-terminal modification |
| void cSequence::setPeptideType | ( | ePeptideType | peptidetype | ) |
Set peptide type.
| peptidetype | peptide type |
| void cSequence::setReference | ( | const string & | reference | ) |
Set reference.
| reference | reference |
| void cSequence::setRetentionTime | ( | double | rtmin, |
| double | rtmax | ||
| ) |
Set retention time.
| rtmin | minimum retention time |
| rtmax | maximum retention time |
| void cSequence::setSequence | ( | const string & | sequence | ) |
Set sequence.
| sequence | sequence |
| void cSequence::setSummaryFormula | ( | const string & | formula | ) |
Set the summary formula.
| formula | summary formula |
| void cSequence::store | ( | ofstream & | os | ) |
Store the structure into an output stream.
| os | an output stream |