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RNPxl.C File Reference
#include <OpenMS/KERNEL/StandardTypes.h>
#include <OpenMS/FORMAT/MzMLFile.h>
#include <OpenMS/FORMAT/FeatureXMLFile.h>
#include <OpenMS/KERNEL/MSExperiment.h>
#include <OpenMS/KERNEL/FeatureMap.h>
#include <OpenMS/CONCEPT/Constants.h>
#include <OpenMS/APPLICATIONS/TOPPBase.h>
#include <OpenMS/FILTERING/TRANSFORMERS/Normalizer.h>
#include <OpenMS/FORMAT/IdXMLFile.h>
#include <QtCore/QStringList>
#include <QtCore/QProcess>
#include <QtCore/QObject>
#include <QFileInfo>
#include <algorithm>
#include <numeric>
#include <iostream>
#include <iomanip>
#include <fstream>

Classes

struct  RNPxlReportRow
 
struct  MarkerIonExtractor
 
struct  RNPxlReportRowHeader
 
struct  ModificationMassesResult
 
class  TOPPRNPxl
 

Macros

#define RT_FACTOR   10000000
 
#define RT_FACTOR_PRECISION   1000
 
#define RT_MODULO_FACTOR   10000
 
#define SEP   '\t'
 

Functions

bool notInSeq (String res_seq, String query)
 
void generateTargetSequences (const String &res_seq, Size pos, const map< char, vector< char > > &map_source2target, StringList &target_sequences)
 
ModificationMassesResult initModificationMassesRNA (StringList target_nucleotides, StringList mappings, StringList restrictions, StringList modifications, String sequence_restriction, bool cysteine_adduct, Int max_length=4)
 
int main (int argc, const char **argv)
 

Macro Definition Documentation

#define RT_FACTOR   10000000

Referenced by TOPPRNPxl::main_().

#define RT_FACTOR_PRECISION   1000

Referenced by TOPPRNPxl::main_().

#define RT_MODULO_FACTOR   10000

Referenced by TOPPRNPxl::main_().

#define SEP   '\t'

Function Documentation

void generateTargetSequences ( const String &  res_seq,
Size  pos,
const map< char, vector< char > > &  map_source2target,
StringList &  target_sequences 
)
ModificationMassesResult initModificationMassesRNA ( StringList  target_nucleotides,
StringList  mappings,
StringList  restrictions,
StringList  modifications,
String  sequence_restriction,
bool  cysteine_adduct,
Int  max_length = 4 
)
int main ( int  argc,
const char **  argv 
)
bool notInSeq ( String  res_seq,
String  query 
)

OpenMS / TOPP release 1.11.1 Documentation generated on Mon Dec 23 2013 22:47:51 using doxygen 1.8.5