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Here is a list of all class members with links to the classes they belong to:
- a -
AAAfter :
PeptideProteinMatchInformation
AABefore :
PeptideProteinMatchInformation
abs_prec_error :
RNPxlReportRow
abundance :
SIPIncorporation
accessions :
RNPxlReportRow
,
SIPPeptide
accumulated :
SIPPeptide
addHit() :
FoundProteinFunctor
ADDITIONAL_ISOTOPES :
TOPPMetaProSIP
arch :
OpenMSOSInfo
- c -
calculateCorrelation() :
TOPPMetaProSIP
calculateDecompositionWeightsIsotopicPatterns() :
MetaProSIPDecomposition
calculateGlobalLR() :
TOPPMetaProSIP
calculateIsotopePatternsFor13CRange() :
MetaProSIPDecomposition
calculateIsotopePatternsFor13CRangeOfAveraginePeptide() :
MetaProSIPDecomposition
calculateIsotopePatternsFor15NRange() :
MetaProSIPDecomposition
calculateIsotopePatternsFor15NRangeOfAveraginePeptide() :
MetaProSIPDecomposition
calculateIsotopePatternsFor2HRange() :
MetaProSIPDecomposition
calculateIsotopePatternsFor2HRangeOfAveraginePeptide() :
MetaProSIPDecomposition
charge :
RNPxlReportRow
,
SIPPeptide
checkRDependencies() :
RIntegration
clusterSIPPeptides() :
MetaProSIPClustering
computeBinnedCoverage() :
OpenSwathWorkflow
computeHyperScore() :
SimpleSearchEngine
copyBatchTransitions_() :
OpenSwathWorkflow
correlateXICsToMono() :
MetaProSIPXICExtraction
correlation :
SIPIncorporation
correlation_map :
SIPPeptide
correlation_maxima :
SIPPeptide
createBinnedPeptideRIAData_() :
MetaProSIPReporting
createCSVReport() :
MetaProSIPReporting
createPeptideCentricCSVReport() :
MetaProSIPReporting
createQualityReport() :
MetaProSIPReporting
- d -
decomposition_map :
SIPPeptide
deisotopeAndSingleChargeMSSpectrum() :
SimpleSearchEngine
doWrite_ :
OpenSwathTSVWriter
- e -
enable_uis_scoring_ :
OpenSwathTSVWriter
enzyme_ :
FoundProteinFunctor
explained_TIC_fraction :
SIPPeptide
extra_rt_extract :
OpenSwathWorkflow::ChromExtractParams
extractIncorporationsAtCorrelationMaxima() :
TOPPMetaProSIP
extractIncorporationsAtHeighestDecompositionWeights() :
TOPPMetaProSIP
extraction_function :
OpenSwathWorkflow::ChromExtractParams
extractIsotopicIntensities() :
TOPPMetaProSIP
extractMarkerIons() :
MarkerIonExtractor
extractPeakSpectrum() :
TOPPMetaProSIP
extractXICs() :
MetaProSIPXICExtraction
extractXICsOfIsotopeTraces() :
MetaProSIPXICExtraction
- f -
feature_mz :
SIPPeptide
feature_rt :
SIPPeptide
FEATURE_STRING :
TOPPMetaProSIP
feature_type :
SIPPeptide
filter_passed :
FoundProteinFunctor
filter_rejected :
FoundProteinFunctor
filterIsotopicIntensities() :
TOPPMetaProSIP
findApexRT() :
TOPPMetaProSIP
FoundProteinFunctor() :
FoundProteinFunctor
- g -
getArchAsString() :
OpenMSOSInfo
getBestRateScorePair() :
TOPPMetaProSIP
getHighPoints() :
MetaProSIPInterpolation
getModifications_() :
SimpleSearchEngine
getNumberOfLabelingElements() :
MetaProSIPDecomposition
getOSAsString() :
OpenMSOSInfo
getRIAClusterCenter() :
MetaProSIPClustering
getString() :
RNPxlReportRow
,
RNPxlReportRowHeader
global_LR :
SIPPeptide
- h -
HasInvalidPeptideLengthPredicate() :
SimpleSearchEngine::HasInvalidPeptideLengthPredicate
- i -
incorporations :
SIPPeptide
input_filename_ :
OpenSwathTSVWriter
isActive() :
OpenSwathTSVWriter
isotopicIntensitiesToSpectrum() :
TOPPMetaProSIP
- l -
logfactorial() :
SimpleSearchEngine
- m -
m_2H :
RNPxlReportRow
m_3H :
RNPxlReportRow
m_4H :
RNPxlReportRow
m_H :
RNPxlReportRow
main_() :
SimpleSearchEngine
,
TOPPMetaProSIP
,
TOPPRNPxl
MapType :
FoundProteinFunctor
marker_ions :
RNPxlReportRow
mass_diff :
SIPPeptide
mass_theo :
SIPPeptide
mergeSpectra() :
TOPPMetaProSIP
min_size_ :
SimpleSearchEngine::HasInvalidPeptideLengthPredicate
min_upper_edge_dist :
OpenSwathWorkflow::ChromExtractParams
ms1_map_ :
OpenSwathWorkflow
mz_extraction_window :
OpenSwathWorkflow::ChromExtractParams
mz_theo :
SIPPeptide
- n -
no_id :
RNPxlReportRow
non_zero_decomposition_coefficients :
SIPPeptide
normalizeToMax() :
TOPPMetaProSIP
- o -
ofs :
OpenSwathTSVWriter
OpenMSOSInfo() :
OpenMSOSInfo
OpenSwathTSVWriter() :
OpenSwathTSVWriter
OpenSwathWorkflow() :
OpenSwathWorkflow
operator!=() :
FoundProteinFunctor
operator()() :
RIALess
,
FoundProteinFunctor
,
SequenceLess
,
SimpleSearchEngine::HasInvalidPeptideLengthPredicate
,
SizeLess
operator<() :
PeptideProteinMatchInformation
operator==() :
PeptideProteinMatchInformation
,
FoundProteinFunctor
original_mz :
RNPxlReportRow
os :
OpenMSOSInfo
os_version :
OpenMSOSInfo
- p -
pattern_spectra :
SIPPeptide
patterns :
SIPPeptide
pep_to_prot :
FoundProteinFunctor
peptide :
RNPxlReportRow
peptide_weight :
RNPxlReportRow
performExtraction() :
OpenSwathWorkflow
performRTNormalization() :
OpenSwathWorkflow
plotFilteredSpectra() :
MetaProSIPReporting
plotHeatMap() :
MetaProSIPReporting
plotScoresAndWeights() :
MetaProSIPReporting
position :
PeptideProteinMatchInformation
postProcessHits_() :
SimpleSearchEngine
ppm :
OpenSwathWorkflow::ChromExtractParams
prepare_coordinates() :
OpenSwathWorkflow
prepare_coordinates_wrap() :
OpenSwathWorkflow
prepareLine() :
OpenSwathTSVWriter
preprocessSpectra_() :
SimpleSearchEngine
protein_index :
PeptideProteinMatchInformation
- r -
rate :
RateScorePair
,
SIPIncorporation
reconstruction :
SIPPeptide
reconstruction_monoistopic :
SIPPeptide
registerOptionsAndFlags_() :
SimpleSearchEngine
,
TOPPMetaProSIP
,
TOPPRNPxl
rel_prec_error :
RNPxlReportRow
RNA :
RNPxlReportRow
RNA_weight :
RNPxlReportRow
RR :
SIPPeptide
rt :
RNPxlReportRow
rt_extraction_window :
OpenSwathWorkflow::ChromExtractParams
RTNormalization() :
OpenSwathWorkflow
- s -
score :
RateScorePair
,
RNPxlReportRow
,
SIPPeptide
scoreAllChromatograms() :
OpenSwathWorkflow
selectChrom_() :
OpenSwathWorkflow
selectPeptidesForBatch_() :
OpenSwathWorkflow
sequence :
SIPPeptide
simpleExtractChromatograms() :
OpenSwathWorkflow
SimpleSearchEngine() :
SimpleSearchEngine
- t -
theoretical :
SIPIncorporation
TOPPMetaProSIP() :
TOPPMetaProSIP
TOPPRNPxl() :
TOPPRNPxl
Type :
SAValue< Index< StringSet< Peptide >, IndexWotd<> > >
- u -
UNASSIGNED_ID_STRING :
TOPPMetaProSIP
UNIDENTIFIED_STRING :
TOPPMetaProSIP
unique :
SIPPeptide
use_ms1_traces_ :
OpenSwathTSVWriter
,
OpenSwathWorkflow
- v -
VALUE :
EquivalenceClassAA_< T >
- w -
writeHeader() :
OpenSwathTSVWriter
writeHTML() :
MetaProSIPReporting
writeLines() :
OpenSwathTSVWriter
writePeakIntensities_() :
TOPPMetaProSIP
- x -
xl_weight :
RNPxlReportRow
OpenMS / TOPP release 2.0.0
Documentation generated on Mon May 23 2016 19:47:20 using doxygen 1.8.11