ms_aahelper Member List

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

appendErrors(const ms_errors &src)	ms_errors
calcFragments(const ms_peptide *peptide, const int seriesID, const bool doubleCharged, const double minMass, const double maxMass, const MASS_TYPE massType, ms_fragmentvector *fragments, ms_errs *err, const FRAG_NL fragNlType=FRAG_NL_PRIMARY) const	ms_aahelper
calcFragments(const ms_peptide *peptide, const int seriesID, const bool doubleCharged, const double minMass, const double maxMass, const MASS_TYPE massType, std::vector< ms_fragment > *fragments, ms_errs *err, const FRAG_NL fragNlType=FRAG_NL_PRIMARY) const	ms_aahelper
calcFragmentsEx(const ms_peptide *peptide, const int seriesID, const int fragCharge, const double minMass, const double maxMass, const MASS_TYPE massType, ms_fragmentvector *fragments, ms_errs *err, const FRAG_NL fragNlType=FRAG_NL_PRIMARY) const	ms_aahelper
calcFragmentsEx(const ms_peptide *peptide, const int seriesID, const int fragCharge, const double minMass, const double maxMass, const MASS_TYPE massType, std::vector< ms_fragment > *fragments, ms_errs *err, const FRAG_NL fragNlType=FRAG_NL_PRIMARY) const	ms_aahelper
calcPeptideMZ(const char *proteinStr, const int proteinLen, const int startPos, const int endPos, const std::vector< int > numThatMustBeModded, const int charge, const MASS_TYPE massType, ms_errs *err) const	ms_aahelper
clearAllErrors()	ms_errors
copyFrom(const ms_aahelper *right)	ms_aahelper
matrix_science::ms_errors::copyFrom(const ms_errors *right)	ms_errors
createCrosslinkedPeptide(const ms_peptide &pepAlpha, const ms_peptide &pepBeta, const ms_linker_site_vector &linkedSites, ms_errs *err) const	ms_aahelper
createPeptide(const char *proteinStr, const int proteinLen, const int startPos, const int endPos, const std::vector< int > varMods, const std::vector< int > varModsWhichNl, const int charge, const MASS_TYPE massType, ms_errs *err) const	ms_aahelper
createPeptide(const char *proteinStr, const int proteinLen, const int startPos, const int endPos, const std::vector< int > varMods, const std::vector< int > varModsWhichNl, const std::vector< int > summedMods, const std::vector< int > summedModsWhichNl, const int charge, const MASS_TYPE massType, ms_errs *err) const	ms_aahelper
defaultValues()	ms_aahelper
FRAG_NL enum name	ms_aahelper
FRAG_NL_PRIMARY enum value	ms_aahelper
FRAG_NL_SECONDARY enum value	ms_aahelper
getEnzyme() const	ms_aahelper
getErrorHandler() const	ms_errors
getFixedMods() const	ms_aahelper
getLastError() const	ms_errors
getLastErrorString() const	ms_errors
getMasses() const	ms_aahelper
getMissed() const	ms_aahelper
getNextPeptide()	ms_aahelper
getPepEnd() const	ms_aahelper
getPepStart() const	ms_aahelper
getVarMods() const	ms_aahelper
isValid() const	ms_errors
ms_aahelper()	ms_aahelper
ms_aahelper(const ms_mascotresfilebase &resfile, const char *enzymeFileName, const char *quantSchemaFilePath="http://www.matrixscience.com/xmlns/schema/quantitation_2 ../html/xmlns/schema/quantitation_2/quantitation_2.xsd http://www.matrixscience.com/xmlns/schema/quantitation_1 ../html/xmlns/schema/quantitation_1/quantitation_1.xsd", const char *unimodSchemaFilePath="http://www.unimod.org/xmlns/schema/unimod_2 ../html/xmlns/schema/unimod_2/unimod_2.xsd")	ms_aahelper
ms_aahelper(const ms_mascotresults &summary, const char *enzymeFileName, const char *quantSchemaFilePath="http://www.matrixscience.com/xmlns/schema/quantitation_2 ../html/xmlns/schema/quantitation_2/quantitation_2.xsd http://www.matrixscience.com/xmlns/schema/quantitation_1 ../html/xmlns/schema/quantitation_1/quantitation_1.xsd", const char *unimodSchemaFilePath="http://www.unimod.org/xmlns/schema/unimod_2 ../html/xmlns/schema/unimod_2/unimod_2.xsd")	ms_aahelper
ms_aahelper(const ms_aahelper &right)	ms_aahelper
ms_errors()	ms_errors
operator=(const ms_aahelper &right)	ms_aahelper
setAvailableModifications(const ms_modvector *fixedModVector, const ms_modvector *varModVector)	ms_aahelper
setEnzyme(const ms_enzyme *enzyme)	ms_aahelper
setMasses(const ms_masses *masses)	ms_aahelper
startIteratePeptides(const char *sequenceProtein, const int sizeProtein, const int pfa)	ms_aahelper
stopIteratePeptides()	ms_aahelper
~ms_aahelper()	ms_aahelper
~ms_errors()	ms_errors