OpenMS  3.0.0
NucleicAcidSearchEngine.cpp File Reference
#include <OpenMS/KERNEL/StandardTypes.h>
#include <OpenMS/APPLICATIONS/TOPPBase.h>
#include <OpenMS/DATASTRUCTURES/ListUtils.h>
#include <OpenMS/DATASTRUCTURES/Param.h>
#include <OpenMS/DATASTRUCTURES/String.h>
#include <OpenMS/MATH/STATISTICS/StatisticFunctions.h>
#include <OpenMS/KERNEL/MSExperiment.h>
#include <OpenMS/KERNEL/MSSpectrum.h>
#include <OpenMS/KERNEL/Peak1D.h>
#include <OpenMS/METADATA/SpectrumSettings.h>
#include <OpenMS/METADATA/ID/IdentificationData.h>
#include <OpenMS/METADATA/ID/IdentificationDataConverter.h>
#include <OpenMS/FORMAT/FASTAFile.h>
#include <OpenMS/FORMAT/IdXMLFile.h>
#include <OpenMS/FORMAT/MzMLFile.h>
#include <OpenMS/FORMAT/MzTabFile.h>
#include <OpenMS/FORMAT/OMSFile.h>
#include <OpenMS/FORMAT/SVOutStream.h>
#include <OpenMS/CHEMISTRY/RNaseDigestion.h>
#include <OpenMS/CHEMISTRY/RNaseDB.h>
#include <OpenMS/CHEMISTRY/RibonucleotideDB.h>
#include <OpenMS/CHEMISTRY/ElementDB.h>
#include <OpenMS/CHEMISTRY/ModifiedNASequenceGenerator.h>
#include <OpenMS/CHEMISTRY/NASequence.h>
#include <OpenMS/FILTERING/TRANSFORMERS/ThresholdMower.h>
#include <OpenMS/FILTERING/TRANSFORMERS/NLargest.h>
#include <OpenMS/FILTERING/TRANSFORMERS/WindowMower.h>
#include <OpenMS/FILTERING/TRANSFORMERS/Normalizer.h>
#include <OpenMS/CHEMISTRY/NucleicAcidSpectrumGenerator.h>
#include <OpenMS/COMPARISON/SPECTRA/SpectrumAlignment.h>
#include <OpenMS/ANALYSIS/ID/MetaboliteSpectralMatching.h>
#include <OpenMS/ANALYSIS/ID/FalseDiscoveryRate.h>
#include <OpenMS/FILTERING/ID/IDFilter.h>
#include <QtCore/QProcess>
#include <boost/regex.hpp>
#include <algorithm>
#include <iostream>
#include <vector>
#include <map>
Include dependency graph for NucleicAcidSearchEngine.cpp:

Classes

class  NucleicAcidSearchEngine
 
struct  NucleicAcidSearchEngine::PrecursorInfo
 
struct  NucleicAcidSearchEngine::AnnotatedHit
 
class  NucleicAcidSearchEngine::HasInvalidLength
 

Macros

#define NUMBER_OF_THREADS   (1)
 

Functions

int main (int argc, const char **argv)
 

Class Documentation

◆ NucleicAcidSearchEngine::AnnotatedHit

struct NucleicAcidSearchEngine::AnnotatedHit
Collaboration diagram for NucleicAcidSearchEngine::AnnotatedHit:
[legend]
Class Members
vector< PeakAnnotation > annotations
IdentifiedOligoRef oligo_ref
double precursor_error_ppm
const PrecursorInfo * precursor_ref
NASequence sequence

Macro Definition Documentation

◆ NUMBER_OF_THREADS

#define NUMBER_OF_THREADS   (1)

Function Documentation

◆ main()

int main ( int  argc,
const char **  argv 
)

References TOPPBase::main().