alignCompactFeatureMaps(std::vector< std::vector< Peak2D > > &, std::vector< TransformationDescription > &) | MapAlignmentAlgorithm | virtual |
alignConsensusMaps(std::vector< ConsensusMap > &, std::vector< TransformationDescription > &) | MapAlignmentAlgorithmIdentification | virtual |
alignFeatureMaps(std::vector< FeatureMap<> > &, std::vector< TransformationDescription > &) | MapAlignmentAlgorithmIdentification | virtual |
alignMaps(std::vector< MapType > &maps, std::vector< TransformationDescription > &transformations) | MapAlignmentAlgorithmIdentification | inline |
alignPeakMaps(std::vector< MSExperiment<> > &, std::vector< TransformationDescription > &) | MapAlignmentAlgorithmIdentification | virtual |
alignPeptideIdentifications(std::vector< std::vector< PeptideIdentification > > &, std::vector< TransformationDescription > &) | MapAlignmentAlgorithmIdentification | virtual |
begin_ | ProgressLogger | mutableprotected |
check_defaults_ | DefaultParamHandler | protected |
checkParameters_(const Size runs) | MapAlignmentAlgorithmIdentification | protected |
CMD enum value | ProgressLogger | |
computeMedians_(SeqToList &rt_data, SeqToValue &medians, bool sorted=false) | MapAlignmentAlgorithmIdentification | protected |
computeTransformations_(std::vector< SeqToList > &rt_data, std::vector< TransformationDescription > &transforms, bool sorted=false) | MapAlignmentAlgorithmIdentification | protected |
create() | MapAlignmentAlgorithmIdentification | inlinestatic |
DefaultParamHandler(const String &name) | DefaultParamHandler | |
DefaultParamHandler(const DefaultParamHandler &rhs) | DefaultParamHandler | |
defaults_ | DefaultParamHandler | protected |
defaultsToParam_() | DefaultParamHandler | protected |
dlg_ | ProgressLogger | mutableprotected |
end_ | ProgressLogger | mutableprotected |
endProgress() const | ProgressLogger | |
error_name_ | DefaultParamHandler | protected |
fitModel(const String &model_type, const Param ¶ms, std::vector< TransformationDescription > &trafos) | MapAlignmentAlgorithm | static |
getDefaults() const | DefaultParamHandler | |
getLogType() const | ProgressLogger | |
getName() const | DefaultParamHandler | |
getParameters() const | DefaultParamHandler | |
getProductName() | MapAlignmentAlgorithmIdentification | inlinestatic |
getReference_() | MapAlignmentAlgorithmIdentification | protected |
getRetentionTimes_(std::vector< PeptideIdentification > &peptides, SeqToList &rt_data) | MapAlignmentAlgorithmIdentification | protected |
getRetentionTimes_(MSExperiment<> &experiment, SeqToList &rt_data) | MapAlignmentAlgorithmIdentification | protected |
getRetentionTimes_(MapType &features, SeqToList &rt_data) | MapAlignmentAlgorithmIdentification | protected |
getSubsections() const | DefaultParamHandler | |
GUI enum value | ProgressLogger | |
hasGoodHit_(PeptideIdentification &peptide) | MapAlignmentAlgorithmIdentification | protected |
last_invoke_ | ProgressLogger | mutableprotected |
LogType enum name | ProgressLogger | |
MapAlignmentAlgorithm() | MapAlignmentAlgorithm | |
MapAlignmentAlgorithmIdentification() | MapAlignmentAlgorithmIdentification | |
MapAlignmentAlgorithmIdentification(const MapAlignmentAlgorithmIdentification &) | MapAlignmentAlgorithmIdentification | private |
min_run_occur_ | MapAlignmentAlgorithmIdentification | protected |
NONE enum value | ProgressLogger | |
operator=(const MapAlignmentAlgorithmIdentification &) | MapAlignmentAlgorithmIdentification | private |
OpenMS::DefaultParamHandler::operator=(const DefaultParamHandler &rhs) | DefaultParamHandler | virtual |
operator==(const DefaultParamHandler &rhs) const | DefaultParamHandler | virtual |
param_ | DefaultParamHandler | protected |
ProgressLogger() | ProgressLogger | |
recursion_depth_ | ProgressLogger | protectedstatic |
reference_ | MapAlignmentAlgorithmIdentification | protected |
reference_index_ | MapAlignmentAlgorithmIdentification | protected |
registerChildren() | MapAlignmentAlgorithm | static |
score_threshold_ | MapAlignmentAlgorithmIdentification | protected |
SeqToList typedef | MapAlignmentAlgorithmIdentification | protected |
SeqToValue typedef | MapAlignmentAlgorithmIdentification | protected |
setLogType(LogType type) const | ProgressLogger | |
setName(const String &name) | DefaultParamHandler | |
setParameters(const Param ¶m) | DefaultParamHandler | |
setProgress(SignedSize value) const | ProgressLogger | |
setReference(Size reference_index=0, const String &reference_file="") | MapAlignmentAlgorithmIdentification | virtual |
startProgress(SignedSize begin, SignedSize end, const String &label) const | ProgressLogger | |
stop_watch_ | ProgressLogger | mutableprotected |
subsections_ | DefaultParamHandler | protected |
type_ | ProgressLogger | mutableprotected |
updateMembers_() | DefaultParamHandler | protectedvirtual |
value_ | ProgressLogger | mutableprotected |
warn_empty_defaults_ | DefaultParamHandler | protected |
~DefaultParamHandler() | DefaultParamHandler | virtual |
~MapAlignmentAlgorithm() | MapAlignmentAlgorithm | virtual |
~MapAlignmentAlgorithmIdentification() | MapAlignmentAlgorithmIdentification | virtual |
~ProgressLogger() | ProgressLogger | |