Ripping protein/peptide identification according their file origin. More...
#include <OpenMS/ANALYSIS/ID/IDRipper.h>
Public Member Functions | |
| IDRipper () | |
| Default constructor. More... | |
| virtual | ~IDRipper () |
| Desctructor. More... | |
| void | rip (std::map< String, std::pair< std::vector< ProteinIdentification >, std::vector< PeptideIdentification > > > &ripped, std::vector< ProteinIdentification > &proteins, std::vector< PeptideIdentification > &peptides) |
| Ripping protein/peptide identification according their file origin. More... | |
Public Member Functions inherited from DefaultParamHandler | |
| DefaultParamHandler (const String &name) | |
| Constructor with name that is displayed in error messages. More... | |
| DefaultParamHandler (const DefaultParamHandler &rhs) | |
| Copy constructor. More... | |
| virtual | ~DefaultParamHandler () |
| Destructor. More... | |
| virtual DefaultParamHandler & | operator= (const DefaultParamHandler &rhs) |
| Assignment operator. More... | |
| virtual bool | operator== (const DefaultParamHandler &rhs) const |
| Equality operator. More... | |
| void | setParameters (const Param ¶m) |
| Sets the parameters. More... | |
| const Param & | getParameters () const |
| Non-mutable access to the parameters. More... | |
| const Param & | getDefaults () const |
| Non-mutable access to the default parameters. More... | |
| const String & | getName () const |
| Non-mutable access to the name. More... | |
| void | setName (const String &name) |
| Mutable access to the name. More... | |
| const std::vector< String > & | getSubsections () const |
| Non-mutable access to the registered subsections. More... | |
Private Member Functions | |
| IDRipper (const IDRipper &rhs) | |
| Copy constructor. More... | |
| IDRipper & | operator= (const IDRipper &rhs) |
| Assignment. More... | |
| void | getProteinHits_ (std::vector< ProteinHit > &result, const std::vector< ProteinHit > &protein_hits, const std::vector< String > &protein_accessions) |
| helper function, extracts all protein hits that match the protein accession More... | |
| void | getProteinAccessions_ (std::vector< String > &result, const std::vector< PeptideHit > &peptide_hits) |
| helper function, returns the string representation of the peptide hit accession More... | |
| void | getProteinIdentification_ (ProteinIdentification &result, PeptideIdentification pep_ident, std::vector< ProteinIdentification > &prot_idents) |
| helper function, returns the protein identification for the given peptide identification based on the same identifier More... | |
Additional Inherited Members | |
Protected Member Functions inherited from DefaultParamHandler | |
| virtual void | updateMembers_ () |
| This method is used to update extra member variables at the end of the setParameters() method. More... | |
| void | defaultsToParam_ () |
| Updates the parameters after the defaults have been set in the constructor. More... | |
Protected Attributes inherited from DefaultParamHandler | |
| Param | param_ |
| Container for current parameters. More... | |
| Param | defaults_ |
| Container for default parameters. This member should be filled in the constructor of derived classes! More... | |
| std::vector< String > | subsections_ |
| Container for registered subsections. This member should be filled in the constructor of derived classes! More... | |
| String | error_name_ |
| Name that is displayed in error messages during the parameter checking. More... | |
| bool | check_defaults_ |
| If this member is set to false no checking if parameters in done;. More... | |
| bool | warn_empty_defaults_ |
| If this member is set to false no warning is emitted when defaults are empty;. More... | |
Ripping protein/peptide identification according their file origin.
Helper class, which is used by ProteinQuantifier. See there for further documentation.
| IDRipper | ( | ) |
Default constructor.
|
virtual |
Desctructor.
|
private |
helper function, returns the string representation of the peptide hit accession
|
private |
helper function, extracts all protein hits that match the protein accession
|
private |
helper function, returns the protein identification for the given peptide identification based on the same identifier
| void rip | ( | std::map< String, std::pair< std::vector< ProteinIdentification >, std::vector< PeptideIdentification > > > & | ripped, |
| std::vector< ProteinIdentification > & | proteins, | ||
| std::vector< PeptideIdentification > & | peptides | ||
| ) |
Ripping protein/peptide identification according their file origin.
Iteration over all PeptideIdentification. For each annotated file origin create a map entry and store the respective PeptideIdentification and ProteinIdentification.
| ripped | Contains the protein identification and peptide identification for each file origin annotated in proteins and peptides |
| proteins | Peptide identification annotated with file origin |
| peptides | Protein identification |
| OpenMS / TOPP release 1.11.1 | Documentation generated on Thu Nov 14 2013 11:19:26 using doxygen 1.8.5 |