OpenMS
2.5.0
Here is a list of all class members with links to the classes they belong to:
- a -
abundance :
SIPIncorporation
accessions :
SIPPeptide
accumulated :
SIPPeptide
adduct :
NucleicAcidSearchEngine::PrecursorInfo
align_() :
UTILProteomicsLFQ
alignAndLink_() :
UTILProteomicsLFQ
ambiguous_mods_ :
NucleicAcidSearchEngine
annotations :
NucleicAcidSearchEngine::AnnotatedHit
arch :
OpenMSOSInfo
- c -
calculateAndFilterFDR_() :
NucleicAcidSearchEngine
calculateDecompositionWeightsIsotopicPatterns() :
MetaProSIPDecomposition
calculateIsotopePatternsFor13CRange() :
MetaProSIPDecomposition
calculateIsotopePatternsFor13CRangeOfAveraginePeptide() :
MetaProSIPDecomposition
calculateIsotopePatternsFor15NRange() :
MetaProSIPDecomposition
calculateIsotopePatternsFor15NRangeOfAveraginePeptide() :
MetaProSIPDecomposition
calculateIsotopePatternsFor18ORange() :
MetaProSIPDecomposition
calculateIsotopePatternsFor18ORangeOfAveraginePeptide() :
MetaProSIPDecomposition
calculateIsotopePatternsFor2HRange() :
MetaProSIPDecomposition
calculateIsotopePatternsFor2HRangeOfAveraginePeptide() :
MetaProSIPDecomposition
calculatePrecursorMass_() :
NucleicAcidSearchEngine
calculateSeeds_() :
UTILProteomicsLFQ
centroidAndCorrectPrecursors_() :
UTILProteomicsLFQ
charge :
NucleicAcidSearchEngine::PrecursorInfo
,
SIPPeptide
checkExtremePSMScores_() :
Epifany
checkRDependencies() :
RIntegration
clusterSIPPeptides() :
MetaProSIPClustering
ConstRibonucleotidePtr :
NucleicAcidSearchEngine
convertPSMScores_() :
Epifany
correlateXICsToMono() :
MetaProSIPXICExtraction
correlation :
SIPIncorporation
correlation_map :
SIPPeptide
correlation_maxima :
SIPPeptide
createBinnedPeptideRIAData_() :
MetaProSIPReporting
createCSVReport() :
MetaProSIPReporting
createPeptideCentricCSVReport() :
MetaProSIPReporting
createQualityReport() :
MetaProSIPReporting
- d -
decomposition_map :
SIPPeptide
DEF_COSINE_SIMILARITY :
TOPPGNPSExport
DEF_PRECURSOR_MZ_TOLERANCE :
TOPPGNPSExport
DEF_PRECURSOR_RT_TOLERANCE :
TOPPGNPSExport
deisotopeAndSingleChargeMSSpectrum_() :
NucleicAcidSearchEngine
- e -
Epifany() :
Epifany
estimateMedianChromatographicFWHM_() :
UTILProteomicsLFQ
explained_TIC_fraction :
SIPPeptide
extractXICs() :
MetaProSIPXICExtraction
extractXICsOfIsotopeTraces() :
MetaProSIPXICExtraction
- f -
feature_mz :
SIPPeptide
feature_rt :
SIPPeptide
feature_type :
SIPPeptide
fragment_ion_codes_ :
NucleicAcidSearchEngine
- g -
generateLFQInput_() :
NucleicAcidSearchEngine
getArchAsString() :
OpenMSOSInfo
getHighPoints() :
MetaProSIPInterpolation
getModifications_() :
NucleicAcidSearchEngine
getNumberOfLabelingElements() :
MetaProSIPDecomposition
getOSAsString() :
OpenMSOSInfo
getPeptideOccurrence_() :
UTILProteomicsLFQ
getRIAClusterCenter() :
MetaProSIPClustering
getSubsectionDefaults_() :
Epifany
global_LR :
SIPPeptide
- h -
HasInvalidLength() :
NucleicAcidSearchEngine::HasInvalidLength
HitsByScore :
NucleicAcidSearchEngine
- i -
incorporations :
SIPPeptide
isotope :
NucleicAcidSearchEngine::PrecursorInfo
- l -
link_() :
UTILProteomicsLFQ
- m -
main_() :
Epifany
,
NucleicAcidSearchEngine
,
TOPPGNPSExport
,
UTILProteomicsLFQ
mapId2MzMLs_() :
UTILProteomicsLFQ
mapMzML2Ids_() :
UTILProteomicsLFQ
mass_diff :
SIPPeptide
mass_theo :
SIPPeptide
max_size_ :
NucleicAcidSearchEngine::HasInvalidLength
min_size_ :
NucleicAcidSearchEngine::HasInvalidLength
mz_theo :
SIPPeptide
- n -
non_zero_decomposition_coefficients :
SIPPeptide
NucleicAcidSearchEngine() :
NucleicAcidSearchEngine
- o -
oligo_ref :
NucleicAcidSearchEngine::AnnotatedHit
OpenMSOSInfo() :
OpenMSOSInfo
operator()() :
NucleicAcidSearchEngine::HasInvalidLength
,
RIALess
,
SequenceLess
,
SizeLess
os :
OpenMSOSInfo
os_version :
OpenMSOSInfo
- p -
parseAdduct_() :
NucleicAcidSearchEngine
patterns :
SIPPeptide
plotFilteredSpectra() :
MetaProSIPReporting
plotHeatMap() :
MetaProSIPReporting
plotScoresAndWeights() :
MetaProSIPReporting
postProcessHits_() :
NucleicAcidSearchEngine
precursor_error_ppm :
NucleicAcidSearchEngine::AnnotatedHit
precursor_ref :
NucleicAcidSearchEngine::AnnotatedHit
PrecursorInfo() :
NucleicAcidSearchEngine::PrecursorInfo
preprocessSpectra_() :
NucleicAcidSearchEngine
- q -
quantifyFraction_() :
UTILProteomicsLFQ
- r -
rate :
RateScorePair
,
SIPIncorporation
recalibrateMasses_() :
UTILProteomicsLFQ
reconstruction :
SIPPeptide
reconstruction_monoistopic :
SIPPeptide
registerIDMetaData_() :
NucleicAcidSearchEngine
registerOptionsAndFlags_() :
Epifany
,
NucleicAcidSearchEngine
,
TOPPGNPSExport
,
UTILProteomicsLFQ
removeExtremeValues_() :
Epifany
resolve_ambiguous_mods_ :
NucleicAcidSearchEngine
resolveAmbiguousMods_() :
NucleicAcidSearchEngine
RR :
SIPPeptide
- s -
scan_index :
NucleicAcidSearchEngine::PrecursorInfo
score :
RateScorePair
,
SIPPeptide
sequence :
NucleicAcidSearchEngine::AnnotatedHit
,
SIPPeptide
- t -
TOPPGNPSExport() :
TOPPGNPSExport
transferIDsBetweenSameFraction_() :
UTILProteomicsLFQ
transform_() :
UTILProteomicsLFQ
- u -
unique :
SIPPeptide
UTILProteomicsLFQ() :
UTILProteomicsLFQ
- w -
writeHTML() :
MetaProSIPReporting
Generated on Fri Jun 12 2020 12:59:53 for OpenMS by
1.8.17