ms_customquantitation Member List

This is the complete list of members for ms_customquantitation, including all inherited members.

addHeaderField(const std::string &name, const std::string &value)	ms_quantitation
addPeptideQuantKey(const std::string &accession, int dbIdx, const ms_peptide_quant_key &key)	ms_customquantitation
addPeptideQuantKeys(const std::string &accession, int dbIdx, const std::vector< ms_peptide_quant_key > &keys)	ms_customquantitation
addPeptideQuantKeys(const std::string &accession, int dbIdx, const ms_peptide_quant_key_vector &keys)	ms_customquantitation
addPeptideRatio(const ms_peptide_quant_ratio &ratio)	ms_customquantitation
addRawFileField(const unsigned int id, const std::string &name, const std::string &value)	ms_quantitation
appendErrors(const ms_errors &src)	ms_errors
calculateGeometricMeanRatio(const std::string &accession, int dbIdx, const std::string &ratioName, const std::vector< double > &sample, const std::vector< double > &logSample, const std::vector< ms_peptide_quant_key > &activeKeys, const std::map< ms_peptide_quant_key, int > &inactiveKeys, double normalityPvalue) const	ms_quantitation	protected
calculateMedianRatio(const std::string &accession, int dbIdx, const std::string &ratioName, const std::vector< double > &sample, const std::vector< double > &logSample, const std::vector< ms_peptide_quant_key > &activeKeys, const std::map< ms_peptide_quant_key, int > &inactiveKeys, double normalityPvalue) const	ms_quantitation	protected
calculateWeightedGeometricMeanRatio(const std::string &accession, int dbIdx, const std::string &ratioName, const std::vector< double > &sample, const std::vector< double > &logSample, const std::vector< double > &weights, const std::vector< ms_peptide_quant_key > &activeKeys, const std::map< ms_peptide_quant_key, int > &inactiveKeys, double normalityPvalue) const	ms_quantitation	protected
clearAllErrors()	ms_errors
clearHeaderFields()	ms_quantitation
clearPeptideQuantKeys(const std::string &accession, int dbIdx)	ms_customquantitation
clearPeptideRatios()	ms_customquantitation
clearRawFileFields()	ms_quantitation
copyFrom(const ms_errors *right)	ms_errors
countDistinctPeptides(const std::vector< ms_peptide_quant_key > &activeKeys) const	ms_quantitation	virtual
countDistinctPeptides(const ms_peptide_quant_key_vector &activeKeys) const	ms_quantitation	virtual
getErrorHandler() const	ms_errors
getLastError() const	ms_errors
getLastErrorString() const	ms_errors
getMinNumPeptides() const	ms_quantitation	protected
getPeptideQuantKeys(const std::string &accession, int dbIdx) const	ms_quantitation
getPeptideRatio(const ms_peptide_quant_key &key, const std::string &ratioName) const	ms_customquantitation	virtual
getPeptideRatioNormalisationBase(const std::string &ratioName) const	ms_quantitation
getProgressInfo()	ms_quantitation
getProteinRatio(const std::string &accession, int dbIdx, const std::string &ratioName) const	ms_customquantitation	virtual
getProteinRatio(const std::string &accession, int dbIdx, const std::string &ratioName, const ms_peptide_quant_key_vector &includeKeys, const ms_peptide_quant_key_vector &excludeKeys) const	ms_customquantitation	virtual
getProteinRatioSample(const std::string &accession, int dbIdx, const std::string &ratioName, const std::vector< ms_peptide_quant_key > &includeKeys, const std::vector< ms_peptide_quant_key > &excludeKeys, std::vector< double > &sample, std::vector< double > &logSample, std::vector< double > &weights, std::vector< ms_peptide_quant_key > &activeKeys, std::map< ms_peptide_quant_key, int > &inactiveKeys, double &normalityPvalue) const	ms_quantitation	protected
getQuantitationMethod() const	ms_quantitation
getSortedFinitePeptideRatioValues(const std::string &ratioName, const std::set< ms_peptide_quant_key > &keys, const std::set< ms_peptide_quant_key > &includeKeys, const std::set< ms_peptide_quant_key > &excludeKEys, std::vector< double > &values, std::vector< double > &weights, std::vector< ms_peptide_quant_key > &activeKeys, std::map< ms_peptide_quant_key, int > &inactiveKeys) const	ms_customquantitation	protectedvirtual
getUnnormalisedAveragePeptideRatio(const std::string &ratioName, const std::string &averageType) const	ms_customquantitation
getUnnormalisedAveragePeptideRatio(const std::string &ratioName, const std::string &averageType, const ms_peptide_quant_key_vector &keys) const	ms_customquantitation
getUnnormalisedAveragePeptideRatio(const std::string &ratioName, const std::string &averageType, const std::string &accession, int dbIdx) const	ms_customquantitation
hasPeptideRatio(const ms_peptide_quant_key &key, const std::string &ratioName) const	ms_customquantitation	virtual
initialiseBaseSettings(const ms_quant_method &qmBase, const ms_quant_method &qmConfig)	ms_quantitation	protected
isPeptideRatioExcluded(const ms_peptide_quant_key &key, const std::string &ratioName) const	ms_customquantitation	virtual
isValid() const	ms_errors
ms_customquantitation(const ms_quant_method &qm)	ms_customquantitation	explicit
ms_customquantitation(const ms_peptidesummary &initFrom)	ms_customquantitation	explicit
ms_customquantitation(const ms_peptidesummary &initFrom, const ms_quant_method &qm)	ms_customquantitation
ms_customquantitation(const ms_ms2quantitation &copyFrom)	ms_customquantitation	explicit
ms_errors()	ms_errors
proteinKeys_	ms_quantitation	protected
removePeptideQuantKey(const std::string &accession, int dbIdx, const ms_peptide_quant_key &key)	ms_customquantitation
removePeptideRatio(const ms_peptide_quant_key &key, const std::string &ratioName)	ms_customquantitation
removePeptideRatioNormalisationBase(const std::string &ratioName)	ms_quantitation
removePeptideRatioNormalisationBases()	ms_quantitation
setMinNumPeptides(int value)	ms_quantitation
setPeptideRatioExcluded(const ms_peptide_quant_key &key, const std::string &ratioName)	ms_customquantitation	virtual
setPeptideRatioIncluded(const ms_peptide_quant_key &key, const std::string &ratioName)	ms_customquantitation	virtual
setPeptideRatioNormalisationBase(const std::string &ratioName, double b)	ms_quantitation
setProteinRatioType(const char *value)	ms_customquantitation	virtual
setQuantOutliers(const ms_quant_outliers *)	ms_customquantitation	virtual
~ms_customquantitation()	ms_customquantitation	virtual
~ms_errors()	ms_errors
~ms_quantitation()=0	ms_quantitation	pure virtual