#include <OpenMS/ANALYSIS/DECHARGING/FeatureDecharger.h>
The Decharger uses an hierarchical clustering (complete linkage) to group charge variants of the same peptide, which usually occur in ESI ionization mode. The resulting zero-charge peptides, which are defined by RT and mass are written in a featureXML file. Intensities of charge variants are summed up. The position of the zero charge variant is the average of all clustered peptides in each dimension. If several peptides with the same charge variant are grouped (which is clearly not allowed), a heuristic is used:
FeatureDecharger Parameters are explained on a separate page.
Public Types | |
typedef FeatureMap | FeatureMapType |
typedef Feature | FeatureType |
typedef DPosition< 2 > | ClusterPointType |
Public Member Functions | |
void | compute (FeatureMapType &map) |
compute a zero-charge feature map from a set of charged features (map ) | |
Constructors and Destructors | |
FeatureDecharger () | |
default constructor | |
FeatureDecharger (const FeatureDecharger &source) | |
Copy constructor. | |
FeatureDecharger & | operator= (const FeatureDecharger &source) |
Assignment operator. | |
virtual | ~FeatureDecharger () |
destructor | |
Acessors | |
const FeatureMapType & | getFeatureMap () const |
retrieve computed zero-charge feature map | |
Protected Attributes | |
FeatureMapType | featuremap_dc_ |
result feature map (zero-charge) |
typedef FeatureMap FeatureMapType |
typedef Feature FeatureType |
typedef DPosition<2> ClusterPointType |
FeatureDecharger | ( | ) | [inline] |
default constructor
FeatureDecharger | ( | const FeatureDecharger & | source | ) | [inline] |
Copy constructor.
virtual ~FeatureDecharger | ( | ) | [inline, virtual] |
destructor
FeatureDecharger& operator= | ( | const FeatureDecharger & | source | ) | [inline] |
Assignment operator.
const FeatureMapType& getFeatureMap | ( | ) | const [inline] |
retrieve computed zero-charge feature map
void compute | ( | FeatureMapType & | map | ) | [inline] |
compute a zero-charge feature map from a set of charged features (map
)
FeatureMapType featuremap_dc_ [protected] |
result feature map (zero-charge)
Generated Tue Apr 1 15:36:41 2008 -- using doxygen 1.5.4 | OpenMS / TOPP 1.1 |