This class implements the simulation of the spectra from PILIS. More...
#include <OpenMS/ANALYSIS/ID/PILISModelGenerator.h>
Inheritance diagram for PILISModelGenerator:
Public Member Functions | |
| PILISModelGenerator & | operator= (const PILISModelGenerator &mode) |
| assignment operator | |
Constructors and destructors | |
| PILISModelGenerator () | |
| default constructor | |
| PILISModelGenerator (const PILISModelGenerator &model) | |
| copy constructor | |
| virtual | ~PILISModelGenerator () |
| destructor | |
Accessors | |
| void | getModel (HiddenMarkovModel &model) |
| generates the model and writes it into model | |
Detailed Description
This class implements the simulation of the spectra from PILIS.
PILIS uses a HMM based structure to model the population of fragment ions from a peptide. The spectrum generator can be accessed via the getSpectrum method.
Parameters of this class are:| Name | Type | Default | Restrictions | Description |
|---|---|---|---|---|
| model_depth | int | 4 | The number of explicitly modeled backbone cleavages from N-terminus and C-terminus, would be 9 for the default value | |
| visible_model_depth | int | 30 | The maximal possible size of a peptide to be modeled | |
| variable_modifications | string list | [Oxidation (M), Carbamidomethyl (C)] | Modifications which should be included in the model, represented by PSI-MOD accessions. | |
| fixed_modifications | string list | [] | Modifications which should replace the unmodified amino acid, represented by PSI-MOD accessions. |
Note:
- If a section name is documented, the documentation is displayed as tooltip.
- Advanced parameter names are italic.
Constructor & Destructor Documentation
default constructor
| PILISModelGenerator | ( | const PILISModelGenerator & | model | ) |
copy constructor
| virtual ~PILISModelGenerator | ( | ) | [virtual] |
destructor
Member Function Documentation
| void getModel | ( | HiddenMarkovModel & | model | ) |
generates the model and writes it into model
| PILISModelGenerator& operator= | ( | const PILISModelGenerator & | mode | ) |
assignment operator
| OpenMS / TOPP release 1.10.0 | Documentation generated on Thu Mar 7 2013 09:42:49 using doxygen 1.7.1 |