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OpenMS
2.8.0
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Database for enzymes that digest RNA (RNases) More...
#include <OpenMS/CHEMISTRY/RNaseDB.h>
Protected Member Functions | |
| RNaseDB () | |
| constructor More... | |
 Protected Member Functions inherited from DigestionEnzymeDB< DigestionEnzymeRNA, RNaseDB > | |
| DigestionEnzymeDB & | operator= (const DigestionEnzymeDB &enzymes_db)=delete |
| assignment operator More... | |
| void | readEnzymesFromFile_ (const String &filename) |
| reads enzymes from the given file More... | |
| const DigestionEnzymeRNA * | parseEnzyme_ (Map< String, String > &values) const |
| parses an enzyme, given the key/value pairs from an XML file More... | |
| void | addEnzyme_ (const DigestionEnzymeRNA *enzyme) |
| add to internal data; also update indices for search by name and regex More... | |
| DigestionEnzymeDB (const String &db_file="") | |
| DigestionEnzymeDB (const DigestionEnzymeDB &enzymes_db)=delete | |
| copy constructor More... | |
Friends | |
| class | DigestionEnzymeDB< DigestionEnzymeRNA, RNaseDB > |
Additional Inherited Members | |
| Public Types inherited from DigestionEnzymeDB< DigestionEnzymeRNA, RNaseDB > | |
| typedef std::set< const DigestionEnzymeRNA * >::const_iterator | ConstEnzymeIterator |
| typedef std::set< const DigestionEnzymeRNA * >::iterator | EnzymeIterator |
| Public Member Functions inherited from DigestionEnzymeDB< DigestionEnzymeRNA, RNaseDB > | |
| virtual | ~DigestionEnzymeDB () |
| destructor More... | |
| const DigestionEnzymeRNA * | getEnzyme (const String &name) const |
| const DigestionEnzymeRNA * | getEnzymeByRegEx (const String &cleavage_regex) const |
| void | getAllNames (std::vector< String > &all_names) const |
| returns all the enzyme names (does NOT include synonym names) More... | |
| bool | hasEnzyme (const String &name) const |
| returns true if the db contains a enzyme with the given name (supports synonym names) More... | |
| bool | hasEnzyme (const DigestionEnzymeRNA *enzyme) const |
| returns true if the db contains the enzyme of the given pointer More... | |
| bool | hasRegEx (const String &cleavage_regex) const |
| returns true if the db contains a enzyme with the given regex More... | |
| ConstEnzymeIterator | beginEnzyme () const |
| ConstEnzymeIterator | endEnzyme () const |
| Static Public Member Functions inherited from DigestionEnzymeDB< DigestionEnzymeRNA, RNaseDB > | |
| static RNaseDB * | getInstance () |
| this member function serves as a replacement of the constructor More... | |
| Protected Attributes inherited from DigestionEnzymeDB< DigestionEnzymeRNA, RNaseDB > | |
| Map< String, const DigestionEnzymeRNA * > | enzyme_names_ |
| index by names More... | |
| Map< String, const DigestionEnzymeRNA * > | enzyme_regex_ |
| index by regex More... | |
| std::set< const DigestionEnzymeRNA * > | const_enzymes_ |
| set of enzymes More... | |
Database for enzymes that digest RNA (RNases)
The enzymes stored in this DB are defined in an XML file under "share/CHEMISTRY/Enzymes_RNA.xml".
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1.9.1
