Home
·
Classes
·
Annotated Classes
·
Modules
·
Members
·
Namespaces
·
Related Pages
Here is a list of all class members with links to the classes they belong to:
- a -
abundance :
SIPIncorporation
accessions :
SIPPeptide
accumulated :
SIPPeptide
ADDITIONAL_ISOTOPES :
TOPPMetaProSIP
arch :
OpenMSOSInfo
- b -
best_localization :
RNPxlSearch::AnnotatedHit
best_localization_score :
RNPxlSearch::AnnotatedHit
- c -
calculateCorrelation() :
TOPPMetaProSIP
calculateDecompositionWeightsIsotopicPatterns() :
MetaProSIPDecomposition
calculateGlobalLR() :
TOPPMetaProSIP
calculateIsotopePatternsFor13CRange() :
MetaProSIPDecomposition
calculateIsotopePatternsFor13CRangeOfAveraginePeptide() :
MetaProSIPDecomposition
calculateIsotopePatternsFor15NRange() :
MetaProSIPDecomposition
calculateIsotopePatternsFor15NRangeOfAveraginePeptide() :
MetaProSIPDecomposition
calculateIsotopePatternsFor18ORange() :
MetaProSIPDecomposition
calculateIsotopePatternsFor18ORangeOfAveraginePeptide() :
MetaProSIPDecomposition
calculateIsotopePatternsFor2HRange() :
MetaProSIPDecomposition
calculateIsotopePatternsFor2HRangeOfAveraginePeptide() :
MetaProSIPDecomposition
charge :
FragmentAnnotationDetail_
,
SIPPeptide
checkRDependencies() :
RIntegration
clusterSIPPeptides() :
MetaProSIPClustering
computeBinnedCoverage() :
OpenSwathWorkflow
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() :
Deisotoper
,
SimpleSearchEngine
doWrite_ :
OpenSwathTSVWriter
- e -
enable_uis_scoring_ :
OpenSwathTSVWriter
explained_TIC_fraction :
SIPPeptide
extra_rt_extract :
OpenSwathWorkflow::ChromExtractParams
extractIncorporationsAtCorrelationMaxima() :
TOPPMetaProSIP
extractIncorporationsAtHeighestDecompositionWeights() :
TOPPMetaProSIP
extraction_function :
OpenSwathWorkflow::ChromExtractParams
extractIsotopicIntensities() :
TOPPMetaProSIP
extractPeakSpectrum() :
TOPPMetaProSIP
extractXICs() :
MetaProSIPXICExtraction
extractXICsOfIsotopeTraces() :
MetaProSIPXICExtraction
- f -
feature_mz :
SIPPeptide
feature_rt :
SIPPeptide
FEATURE_STRING :
TOPPMetaProSIP
feature_type :
SIPPeptide
filterIsotopicIntensities() :
TOPPMetaProSIP
findApexRT() :
TOPPMetaProSIP
formula :
RNPxlSearch::FragmentAdductDefinition_
fragment_annotation_string :
RNPxlSearch::AnnotatedHit
FragmentAnnotationDetail_() :
FragmentAnnotationDetail_
fragmentAnnotationDetailsToString() :
FragmentAnnotationHelper
- g -
getAllFeasibleFragmentAdducts_() :
RNPxlSearch
getAnnotatedImmoniumIon() :
FragmentAnnotationHelper
getArchAsString() :
OpenMSOSInfo
getBestRateScorePair() :
TOPPMetaProSIP
getFeasibleFragmentAdducts_() :
RNPxlSearch
getHighPoints() :
MetaProSIPInterpolation
getModifications_() :
RNPxlSearch
,
SimpleSearchEngine
getNumberOfLabelingElements() :
MetaProSIPDecomposition
getOSAsString() :
OpenMSOSInfo
getPrecursorToFragmentAdducts_() :
RNPxlSearch
getRIAClusterCenter() :
MetaProSIPClustering
global_LR :
SIPPeptide
- h -
hasBetterScore() :
RNPxlSearch::AnnotatedHit
- i -
incorporations :
SIPPeptide
input_filename_ :
OpenSwathTSVWriter
intensity :
FragmentAnnotationDetail_
isActive() :
OpenSwathTSVWriter
isotopicIntensitiesToSpectrum() :
TOPPMetaProSIP
- l -
localization_scores :
RNPxlSearch::AnnotatedHit
- m -
main_() :
RNPxlSearch
,
SimpleSearchEngine
,
TOPPMetaProSIP
,
TOPPRNPxl
mass_diff :
SIPPeptide
mass_theo :
SIPPeptide
mergeSpectra() :
TOPPMetaProSIP
min_upper_edge_dist :
OpenSwathWorkflow::ChromExtractParams
ms1_map_ :
OpenSwathWorkflow
mz :
FragmentAnnotationDetail_
mz_extraction_window :
OpenSwathWorkflow::ChromExtractParams
mz_theo :
SIPPeptide
- n -
name :
RNPxlSearch::FragmentAdductDefinition_
non_zero_decomposition_coefficients :
SIPPeptide
normalizeAdductName_() :
RNPxlSearch
normalizeToMax() :
TOPPMetaProSIP
- o -
ofs :
OpenSwathTSVWriter
OpenMSOSInfo() :
OpenMSOSInfo
OpenSwathTSVWriter() :
OpenSwathTSVWriter
OpenSwathWorkflow() :
OpenSwathWorkflow
operator()() :
RIALess
,
SequenceLess
,
SizeLess
operator<() :
FragmentAnnotationDetail_
,
RNPxlSearch::FragmentAdductDefinition_
operator==() :
FragmentAnnotationDetail_
,
RNPxlSearch::FragmentAdductDefinition_
os :
OpenMSOSInfo
os_version :
OpenMSOSInfo
- p -
patterns :
SIPPeptide
peptide_mod_index :
RNPxlSearch::AnnotatedHit
performExtraction() :
OpenSwathWorkflow
performRTNormalization() :
OpenSwathWorkflow
plotFilteredSpectra() :
MetaProSIPReporting
plotHeatMap() :
MetaProSIPReporting
plotScoresAndWeights() :
MetaProSIPReporting
postProcessHits_() :
RNPxlSearch
,
SimpleSearchEngine
postScoreHits_() :
RNPxlSearch
ppm :
OpenSwathWorkflow::ChromExtractParams
PrecursorToFragmentAdductMapType :
RNPxlSearch
prepare_coordinates() :
OpenSwathWorkflow
prepare_coordinates_wrap() :
OpenSwathWorkflow
prepareLine() :
OpenSwathTSVWriter
preprocessSpectra_() :
RNPxlSearch
,
SimpleSearchEngine
- r -
rate :
RateScorePair
,
SIPIncorporation
reconstruction :
SIPPeptide
reconstruction_monoistopic :
SIPPeptide
registerOptionsAndFlags_() :
RNPxlSearch
,
SimpleSearchEngine
,
TOPPMetaProSIP
,
TOPPRNPxl
rna_mod_index :
RNPxlSearch::AnnotatedHit
RNPxlSearch() :
RNPxlSearch
RR :
SIPPeptide
rt_extraction_window :
OpenSwathWorkflow::ChromExtractParams
RTNormalization() :
OpenSwathWorkflow
- s -
score :
RateScorePair
,
RNPxlSearch::AnnotatedHit
,
SIPPeptide
scoreAllChromatograms() :
OpenSwathWorkflow
selectChrom_() :
OpenSwathWorkflow
selectCompoundsForBatch_() :
OpenSwathWorkflow
sequence :
RNPxlSearch::AnnotatedHit
,
SIPPeptide
shift :
FragmentAnnotationDetail_
shiftedImmoniumIonsToString() :
FragmentAnnotationHelper
shiftedMarkerIonsToString() :
FragmentAnnotationHelper
shiftedPrecursorIonsToString() :
FragmentAnnotationHelper
simpleExtractChromatograms() :
OpenSwathWorkflow
SimpleSearchEngine() :
SimpleSearchEngine
- t -
TOPPMetaProSIP() :
TOPPMetaProSIP
TOPPRNPxl() :
TOPPRNPxl
- u -
UNASSIGNED_ID_STRING :
TOPPMetaProSIP
UNIDENTIFIED_STRING :
TOPPMetaProSIP
unique :
SIPPeptide
use_ms1_traces_ :
OpenSwathTSVWriter
,
OpenSwathWorkflow
- w -
writeHeader() :
OpenSwathTSVWriter
writeHTML() :
MetaProSIPReporting
writeLines() :
OpenSwathTSVWriter
writePeakIntensities_() :
TOPPMetaProSIP
OpenMS / TOPP release 2.1.0
Documentation generated on Sun Jun 11 2017 18:22:15 using doxygen 1.8.13