Classes | |
class | AAIndex |
Representation of selected AAIndex properties. More... | |
class | AASequence::ConstIterator |
ConstIterator for AASequence. More... | |
class | AASequence::Iterator |
Iterator class for AASequence. More... | |
class | AASequence |
Representation of a peptide/protein sequence. More... | |
class | Element |
Representation of an element. More... | |
class | ElementDB |
Stores elements. More... | |
class | EmpiricalFormula |
Representation of an empirical formula. More... | |
struct | EnzymaticDigestion::BindingSite |
struct | EnzymaticDigestion::CleavageModel |
class | EnzymaticDigestion |
Class for the enzymatic digestion of proteins. More... | |
class | IsotopeDistribution |
Isotope distribution class. More... | |
class | ModificationDefinition |
Representation of modification definition. More... | |
class | ModificationDefinitionsSet |
Representation of a set of modification definitions. More... | |
class | ModificationsDB |
database which holds all residue modifications from UniMod More... | |
class | Residue |
Representation of a residue. More... | |
class | ResidueDB |
residue data base which holds residues More... | |
struct | SvmTheoreticalSpectrumGenerator::IonType |
nested class More... | |
struct | SvmTheoreticalSpectrumGenerator::DescriptorSet |
A set of descriptors for a single training row. More... | |
struct | SvmTheoreticalSpectrumGenerator::SvmModelParameterSet |
Simple container storing the model parameters required for simulation. More... | |
class | SvmTheoreticalSpectrumGenerator |
Simulates MS2 spectra with support vector machines. More... | |
class | SvmTheoreticalSpectrumGeneratorSet |
Loads SvmTheoreticalSpectrumGenerator instances for different charges. More... | |
class | SvmTheoreticalSpectrumGeneratorTrainer |
Train SVM models that are used by SvmTheoreticalSpectrumGenerator. More... | |
class | TheoreticalSpectrumGenerator |
Generates theoretical spectra with various options. More... | |
Enumerations | |
enum | Enzyme { ENZYME_TRYPSIN, ENZYME_TRYPSIN_P, SIZE_OF_ENZYMES } |
Possible enzymes for the digestion (adapt NamesOfEnzymes & nextCleavageSite_() if you add more enzymes here) More... | |
enum | Specificity { SPEC_FULL, SPEC_SEMI, SPEC_NONE, SIZE_OF_SPECIFICITY } |
when querying for valid digestion products, this determines if the specificity of the two peptide ends is considered important More... | |
Enums | |
enum | ResidueType { Full = 0, Internal, NTerminal, CTerminal, AIon, BIon, CIonMinusOne, CIon, CIonPlusOne, CIonPlusTwo, XIon, YIon, ZIonMinusOne, ZIon, ZIonPlusOne, ZIonPlusTwo, SizeOfResidueType } |
enum Enzyme |
Possible enzymes for the digestion (adapt NamesOfEnzymes & nextCleavageSite_() if you add more enzymes here)
Enumerator | |
---|---|
ENZYME_TRYPSIN | |
ENZYME_TRYPSIN_P | |
SIZE_OF_ENZYMES |
enum ResidueType |
Enumerator | |
---|---|
Full | |
Internal | |
NTerminal | |
CTerminal | |
AIon | |
BIon | |
CIonMinusOne | |
CIon | |
CIonPlusOne | |
CIonPlusTwo | |
XIon | |
YIon | |
ZIonMinusOne | |
ZIon | |
ZIonPlusOne | |
ZIonPlusTwo | |
SizeOfResidueType |
|
OpenMS / TOPP release 2.0.0 | Documentation generated on Thu Aug 20 2015 01:44:32 using doxygen 1.8.9.1 |