Index
_
|
A
|
B
|
C
|
D
|
E
|
F
|
G
|
H
|
I
|
J
|
L
|
M
|
N
|
O
|
P
|
Q
|
R
|
S
|
T
|
U
|
V
_
__eq__() (nPYc.utilities.normalisation._normaliserABC.Normaliser method)
__str__() (nPYc.utilities.normalisation._normaliserABC.Normaliser method)
_generateReportMS (class in nPYc.reports)
_generateReportNMR (class in nPYc.reports)
_generateReportTargeted (class in nPYc.reports)
_generateSampleReport (class in nPYc.reports)
_reset() (nPYc.utilities.normalisation._normaliserABC.Normaliser method)
A
accuracyPrecision() (nPYc.objects.TargetedDataset method)
addFeatureInfo() (nPYc.objects.Dataset method)
addSampleInfo() (nPYc.objects.Dataset method)
(nPYc.objects.MSDataset method)
(nPYc.objects.NMRDataset method)
(nPYc.objects.TargetedDataset method)
Aliquot
amendBatches() (nPYc.objects.MSDataset method)
Analytical Batch
AnalyticalPlatform (class in nPYc.enumerations)
(nPYc.objects.Dataset attribute)
applyMasks() (nPYc.objects.Dataset method)
(nPYc.objects.MSDataset method)
(nPYc.objects.TargetedDataset method)
artifactualFilter() (nPYc.objects.MSDataset method)
artifactualLinkageMatrix (nPYc.objects.MSDataset attribute)
Assay
(nPYc.enumerations.AssayRole attribute)
Assay Role
AssayRole (class in nPYc.enumerations)
Attributes (nPYc.objects.Dataset attribute)
B
backcalculatedIS (nPYc.enumerations.CalibrationMethod attribute)
Batch Effects
Blank (nPYc.enumerations.AssayRole attribute)
BrukerivDrEstimate (nPYc.enumerations.QuantificationType attribute)
BrukerivDrQuant (nPYc.enumerations.QuantificationType attribute)
buildFileList() (in module nPYc.utilities)
C
CalibrationMethod (class in nPYc.enumerations)
Continuum (nPYc.enumerations.VariableType attribute)
Continuum Data
Correction Batch
correctMSdataset() (in module nPYc.batchAndROCorrection)
Correlation to Dilution
correlationSpectroscopyInteractive() (in module nPYc.plotting)
correlationToDilution (nPYc.objects.MSDataset attribute)
D
Dataset (class in nPYc.objects)
DatasetLevel (class in nPYc.enumerations)
DESI (nPYc.enumerations.Ionisation attribute)
Discrete (nPYc.enumerations.VariableType attribute)
Discrete Data
E
EI (nPYc.enumerations.Ionisation attribute)
Empty (nPYc.enumerations.DatasetLevel attribute)
ESI (nPYc.enumerations.Ionisation attribute)
excludeFeatures() (nPYc.objects.Dataset method)
(nPYc.objects.MSDataset method)
excludeSamples() (nPYc.objects.Dataset method)
exploratoryAnalysisPCA() (in module nPYc.multivariate.exploratoryAnalysisPCA)
exportDataset() (nPYc.objects.Dataset method)
(nPYc.objects.TargetedDataset method)
ExternalReference (nPYc.enumerations.SampleType attribute)
extractParams() (in module nPYc.utilities.extractParams)
F
Feature
featureMask (nPYc.objects.Dataset attribute)
featureMetadata (nPYc.objects.Dataset attribute)
G
getFeatures() (nPYc.objects.Dataset method)
H
histogram() (in module nPYc.plotting)
I
initialiseMasks() (nPYc.objects.Dataset method)
(nPYc.objects.MSDataset method)
intensityData (nPYc.objects.Dataset attribute)
Ionisation (class in nPYc.enumerations)
IS (nPYc.enumerations.QuantificationType attribute)
J
jointplotRSDvCorrelation() (in module nPYc.plotting)
L
LinearityReference (nPYc.enumerations.AssayRole attribute)
log (nPYc.objects.Dataset attribute)
Long-Term Reference
LTR
M
m/z
MALDI (nPYc.enumerations.Ionisation attribute)
Mass Accuracy
Mass Spectrometry
Mass-to-Charge Ratio
Matrix
mergeLimitsOfQuantification() (nPYc.objects.TargetedDataset method)
MethodReference (nPYc.enumerations.SampleType attribute)
Monitored (nPYc.enumerations.QuantificationType attribute)
MS
(nPYc.enumerations.AnalyticalPlatform attribute)
MSDataset (class in nPYc.objects)
multivariateReport (class in nPYc.reports)
N
name (nPYc.objects.Dataset attribute)
Negative (nPYc.enumerations.Polarity attribute)
NMR
(nPYc.enumerations.AnalyticalPlatform attribute)
nmrCalibration (nPYc.enumerations.CalibrationMethod attribute)
NMRDataset (class in nPYc.objects)
noCalibration (nPYc.enumerations.CalibrationMethod attribute)
noFeatures (nPYc.objects.Dataset attribute)
noIS (nPYc.enumerations.CalibrationMethod attribute)
Normalisation (nPYc.objects.Dataset attribute)
normalisation_coefficients (nPYc.utilities.normalisation._normaliserABC.Normaliser attribute)
(nPYc.utilities.normalisation.NullNormaliser attribute)
(nPYc.utilities.normalisation.ProbabilisticQuotientNormaliser attribute)
(nPYc.utilities.normalisation.TotalAreaNormaliser attribute)
normalise() (nPYc.utilities.normalisation._normaliserABC.Normaliser method)
(nPYc.utilities.normalisation.NullNormaliser method)
(nPYc.utilities.normalisation.ProbabilisticQuotientNormaliser method)
(nPYc.utilities.normalisation.TotalAreaNormaliser method)
Normaliser (class in nPYc.utilities.normalisation._normaliserABC)
noSamples (nPYc.objects.Dataset attribute)
Notation conventions (code)
nPYc (module)
nPYc.batchAndROCorrection (module)
nPYc.enumerations (module)
nPYc.multivariate.exploratoryAnalysisPCA (module)
nPYc.plotting (module)
nPYc.utilities (module)
nPYc.utilities.extractParams (module)
nPYc.utilities.normalisation (module)
Nuclear Magnetic Resonance Spectroscopy
NullNormaliser (class in nPYc.utilities.normalisation)
O
Other (nPYc.enumerations.AnalyticalPlatform attribute)
otherCalibration (nPYc.enumerations.CalibrationMethod attribute)
P
Participant
plot() (nPYc.objects.NMRDataset method)
plotAccuracyPrecision() (in module nPYc.plotting)
plotBaseline() (in module nPYc.plotting)
plotBaselineInteractive() (in module nPYc.plotting)
plotBatchAndROCorrection() (in module nPYc.plotting)
plotCalibrationInteractive() (in module nPYc.plotting)
plotCorrelationToLRbyFeature() (in module nPYc.plotting)
plotDiscreteLoadings() (in module nPYc.plotting)
plotFeatureLOQ() (in module nPYc.plotting)
plotFeatureRanges() (in module nPYc.plotting)
plotIonMap() (in module nPYc.plotting)
plotIonMapInteractive() (in module nPYc.plotting)
plotLineWidth() (in module nPYc.plotting)
plotLineWidthInteractive() (in module nPYc.plotting)
plotLoadings() (in module nPYc.plotting)
plotLoadingsInteractive() (in module nPYc.plotting)
plotLOQRunOrder() (in module nPYc.plotting)
plotLRTIC() (in module nPYc.plotting)
plotMetadataDistribution() (in module nPYc.plotting)
plotOutliers() (in module nPYc.plotting)
plotRSDs() (in module nPYc.plotting)
plotRSDsInteractive() (in module nPYc.plotting)
plotScores() (in module nPYc.plotting)
plotScoresInteractive() (in module nPYc.plotting)
plotScree() (in module nPYc.plotting)
plotSolventResonance() (in module nPYc.plotting)
plotSolventResonanceInteractive() (in module nPYc.plotting)
plotSpectraInteractive() (in module nPYc.plotting)
plotSpectralVariance() (in module nPYc.plotting)
plotSpectralVarianceInteractive() (in module nPYc.plotting)
plotTargetedFeatureDistribution() (in module nPYc.plotting)
plotTIC() (in module nPYc.plotting)
plotTICinteractive() (in module nPYc.plotting)
plotVariableScatter() (in module nPYc.plotting)
Polarity (class in nPYc.enumerations)
Positive (nPYc.enumerations.Polarity attribute)
ppm (MS)
(NMR)
PrecisionReference (nPYc.enumerations.AssayRole attribute)
Preparative Batch
ProbabilisticQuotientNormaliser (class in nPYc.utilities.normalisation)
ProceduralBlank (nPYc.enumerations.SampleType attribute)
Profile (nPYc.enumerations.VariableType attribute)
Q
QCReady (nPYc.enumerations.DatasetLevel attribute)
QuantAltLabeledAnalogue (nPYc.enumerations.QuantificationType attribute)
QuantificationType (class in nPYc.enumerations)
QuantOther (nPYc.enumerations.QuantificationType attribute)
QuantOwnLabeledAnalogue (nPYc.enumerations.QuantificationType attribute)
R
reference (nPYc.utilities.normalisation.ProbabilisticQuotientNormaliser attribute)
Reference Sample
Relative Standard Deviation
Repeat Assay
Rerun Assay
Resolution
Retention Time
RFC
RFC 3339
RSD
rsd() (in module nPYc.utilities)
rsdsBySampleType() (in module nPYc.utilities)
rsdSP (nPYc.objects.MSDataset attribute)
(nPYc.objects.TargetedDataset attribute)
rsdSS (nPYc.objects.MSDataset attribute)
(nPYc.objects.TargetedDataset attribute)
Run Order
Run-Order Effects
S
Sample
Sample Assay
Sample Base Name
Sample Batch
Sample File Name
Sample Source
Sample Type
sampleMask (nPYc.objects.Dataset attribute)
sampleMetadata (nPYc.objects.Dataset attribute)
SampleType (class in nPYc.enumerations)
Sampling Event
saveFeatureMask() (nPYc.objects.MSDataset method)
sequentialPrecision() (in module nPYc.utilities)
Serial Dilution Sample
Spectral (nPYc.enumerations.VariableType attribute)
Spectral Data
SR
SRDS
SS
Study
Study Reference
Study Sample
StudyPool (nPYc.enumerations.SampleType attribute)
StudySample (nPYc.enumerations.SampleType attribute)
Subject
T
TargetedDataset (class in nPYc.objects)
TotalAreaNormaliser (class in nPYc.utilities.normalisation)
U
Ultra-Performance Liquid Chromatography Mass-Spectrometry
Unknown (nPYc.enumerations.DatasetLevel attribute)
updateMasks() (nPYc.objects.Dataset method)
(nPYc.objects.MSDataset method)
(nPYc.objects.NMRDataset method)
(nPYc.objects.TargetedDataset method)
UPLC-MS
V
validateObject() (nPYc.objects.Dataset method)
(nPYc.objects.MSDataset method)
(nPYc.objects.TargetedDataset method)
ValuesOnly (nPYc.enumerations.DatasetLevel attribute)
VariableType (class in nPYc.enumerations)
nPYc Toolbox
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