Index

A | B | C | D | E | F | G | H | I | K | L | M | N | O | P | R | S | T | U | V | W | X | Z

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A

abbr (mvpa.atlases.base.Label attribute) absminDistance() (in module mvpa.clfs.distance) Absolute() (in module mvpa.misc.transformers) active (mvpa.base.verbosity.SetLogger attribute) AdaptiveNormal (class in mvpa.clfs.stats) AdaptiveNullDist (class in mvpa.clfs.stats) AdaptiveRDist (class in mvpa.clfs.stats) add() (mvpa.clfs.transerror.SummaryStatistics method) (mvpa.misc.cmdline.OptionGroups method) (mvpa.misc.state.Collection method) AFNI aggregateFeatures() (in module mvpa.datasets.miscfx) alternative build procedure analyzer (mvpa.measures.base.ProxyClassifierSensitivityAnalyzer attribute) analyzers (mvpa.measures.base.CombinedFeaturewiseDatasetMeasure attribute) anova

API reference apply() (mvpa.atlases.transformation.Linear method) (mvpa.atlases.transformation.MNI2Tal_MatthewBrett method) applyMapper() (mvpa.datasets.base.Dataset method) (mvpa.datasets.meta.MetaDataset method) asDescreteTime() (mvpa.misc.support.Event method) asstring() (mvpa.clfs.transerror.ConfusionMatrix method) (mvpa.clfs.transerror.RegressionStatistics method) (mvpa.clfs.transerror.SummaryStatistics method) Atlas() (in module mvpa.atlases.warehouse) AttributesCollector (class in mvpa.misc.state) AttributeWithUnique (class in mvpa.misc.state) AUCErrorFx (class in mvpa.misc.errorfx) aucs (mvpa.clfs.transerror.ROCCurve attribute) autoNullDist() (in module mvpa.clfs.stats)

B

backports BaseAtlas (class in mvpa.atlases.base) BestDetector (class in mvpa.featsel.helpers) bestindex (mvpa.featsel.helpers.BestDetector attribute) bias (mvpa.measures.base.StaticDatasetMeasure attribute) biases (mvpa.clfs.smlr.SMLR attribute) binary packages, [Link] BinaryClassifier (class in mvpa.clfs.base) block-averaging

BLR (class in mvpa.clfs.blr) BoostedClassifier (class in mvpa.clfs.base) BoostedClassifierSensitivityAnalyzer (class in mvpa.measures.base) BoxcarMapper (class in mvpa.mappers.boxcar) BrainVoyagerRTC (class in mvpa.misc.bv.base) build instructions building from source building on Windows

C

C (mvpa.datasets.base.Dataset attribute) cartesianDistance() (in module mvpa.clfs.distance) cdf() (mvpa.clfs.stats.AdaptiveRDist method) (mvpa.clfs.stats.FixedNullDist method) (mvpa.clfs.stats.MCNullDist method) (mvpa.clfs.stats.Nonparametric method) (mvpa.clfs.stats.NullDist method) cfg ChainMapper (class in mvpa.mappers.base) changelog ChannelDataset (class in mvpa.datasets.channel) channelids (mvpa.datasets.channel.ChannelDataset attribute) channels (mvpa.misc.io.eepbin.EEPBin attribute) checkRange() (in module mvpa.atlases.base) chirpLinear() (in module mvpa.misc.data_generators) chisquare() (in module mvpa.misc.stats) chunks (mvpa.datasets.base.Dataset attribute) citation classifier Classifier (class in mvpa.clfs.base) classifier error classifier weights ClassifierCombiner (class in mvpa.clfs.base) ClassifierError (class in mvpa.clfs.transerror) ClassWithCollections (class in mvpa.misc.state) clean() (mvpa.clfs.stats.MCNullDist method) clf (mvpa.clfs.base.ProxyClassifier attribute) (mvpa.clfs.transerror.ClassifierError attribute) (mvpa.measures.base.Sensitivity attribute) clfs (mvpa.clfs.base.BoostedClassifier attribute) coarsenChunks() (in module mvpa.datasets.miscfx) code swarm CollectableAttribute (class in mvpa.misc.state) Collection (class in mvpa.misc.state) ColumnData (class in mvpa.misc.io.base) combined_analyzer (mvpa.measures.base.BoostedClassifierSensitivityAnalyzer attribute) CombinedClassifier (class in mvpa.clfs.base) CombinedFeaturewiseDatasetMeasure (class in mvpa.measures.base) CombinedMapper (class in mvpa.mappers.base) combiner (mvpa.algorithms.cvtranserror.CrossValidatedTransferError attribute) (mvpa.clfs.base.CombinedClassifier attribute) compute() (mvpa.clfs.kernel.Kernel method) (mvpa.clfs.kernel.KernelConstant method) (mvpa.clfs.kernel.KernelExponential method) (mvpa.clfs.kernel.KernelLinear method) (mvpa.clfs.kernel.KernelMatern_3_2 method) (mvpa.clfs.kernel.KernelRationalQuadratic method) (mvpa.clfs.kernel.KernelSquaredExponential method) (mvpa.clfs.transerror.SummaryStatistics method)

compute_gradient() (mvpa.clfs.kernel.Kernel method) compute_gradient_log_marginal_likelihood() (mvpa.clfs.gpr.GPR method) compute_gradient_log_marginal_likelihood_logscale() (mvpa.clfs.gpr.GPR method) compute_lml_gradient() (mvpa.clfs.kernel.Kernel method) (mvpa.clfs.kernel.KernelConstant method) (mvpa.clfs.kernel.KernelExponential method) (mvpa.clfs.kernel.KernelLinear method) (mvpa.clfs.kernel.KernelSquaredExponential method) compute_lml_gradient_logscale() (mvpa.clfs.kernel.Kernel method) (mvpa.clfs.kernel.KernelConstant method) (mvpa.clfs.kernel.KernelExponential method) (mvpa.clfs.kernel.KernelLinear method) (mvpa.clfs.kernel.KernelSquaredExponential method) compute_log_marginal_likelihood() (mvpa.clfs.blr.BLR method) (mvpa.clfs.gpr.GPR method) compute_M_H() (mvpa.measures.irelief.IterativeRelief method) (mvpa.measures.irelief.IterativeRelief_Devel method) config file ConfigManager (class in mvpa.base.config) configuration ConfusionBasedError (class in mvpa.clfs.transerror) ConfusionMatrix (class in mvpa.clfs.transerror) ConvergenceError (class in mvpa.misc.exceptions) convertFeatureIds2FeatureMask() (mvpa.datasets.base.Dataset method) convertFeatureMask2FeatureIds() (mvpa.datasets.base.Dataset method) convertOutIds2InMask() (mvpa.mappers.mask.MaskMapper method) convertOutIds2OutMask() (mvpa.mappers.mask.MaskMapper method) coord (mvpa.atlases.base.Label attribute) coordT (mvpa.atlases.base.XMLBasedAtlas attribute) copy() (mvpa.datasets.base.Dataset method) CorrCoef (class in mvpa.measures.corrcoef) count (mvpa.atlases.base.Label attribute) cross-validation, [Link], [Link] CrossValidatedTransferError (class in mvpa.algorithms.cvtranserror) CustomSplitter (class in mvpa.datasets.splitter)

D

data (mvpa.misc.io.base.DataReader attribute) data formats data splitting DataReader (class in mvpa.misc.io.base) dataset Dataset (class in mvpa.datasets.base) dataset attribute DatasetAttribute (class in mvpa.misc.state) DatasetError (class in mvpa.misc.exceptions) DatasetMeasure (class in mvpa.measures.base) datasetmethod() (in module mvpa.datasets.base) datasets (mvpa.datasets.meta.MetaDataset attribute) Debian, [Link] debug, [Link] default (mvpa.misc.param.Parameter attribute) defineFeatureGroups() (mvpa.datasets.base.Dataset method) DenseArrayMapper (class in mvpa.mappers.array) descr (mvpa.misc.state.ClassWithCollections attribute)

DescreteMetric (class in mvpa.mappers.metric) design2labels() (in module mvpa.misc.io.base) detrend() (in module mvpa.datasets.miscfx_sp) detrending development development snapshot disable() (mvpa.misc.state.StateCollection method) discardOut() (mvpa.mappers.mask.MaskMapper method) distance (mvpa.atlases.base.ReferencesAtlas attribute) doubleGammaHRF() (in module mvpa.misc.fx) dt (mvpa.datasets.channel.ChannelDataset attribute) (mvpa.misc.io.eepbin.EEPBin attribute) dumbFeatureBinaryDataset() (in module mvpa.misc.data_generators) dumbFeatureDataset() (in module mvpa.misc.data_generators) dump() (mvpa.misc.io.hamster.Hamster method) durations (mvpa.misc.fsl.base.FslEV3 attribute)

E

EEPBin (class in mvpa.misc.io.eepbin) EEPDataset (class in mvpa.datasets.eep) ElementSelector (class in mvpa.featsel.helpers) elementsize (mvpa.mappers.metric.DescreteMetric attribute) enable() (mvpa.misc.state.StateCollection method) (mvpa.misc.state.StateVariable method) enabled (mvpa.misc.state.StateCollection attribute) enhancedClassDocString() (in module mvpa.base.dochelpers) enhancedDocString() (in module mvpa.base.dochelpers) environment variable MVPA_DEBUG, [Link], [Link] MVPA_DEBUG_METRICS MVPA_EXAMPLES_INTERACTIVE MVPA_QUICKTEST MVPA_SEED MVPA_SVM_BACKEND MVPA_TESTS_LABILE, [Link] MVPA_TESTS_QUICK, [Link] MVPA_VERBOSE MVPA_VERBOSE_OUTPUT MVPA_WARNINGS_BT MVPA_WARNINGS_COUNT, [Link] MVPA_WARNINGS_SUPPRESS

equalDefault (mvpa.misc.param.Parameter attribute) ERNiftiDataset (class in mvpa.datasets.nifti) errLinePlot() (in module mvpa.misc.plot.base) error (mvpa.clfs.transerror.ConfusionMatrix attribute) (mvpa.clfs.transerror.RegressionStatistics attribute) (mvpa.clfs.transerror.SummaryStatistics attribute) errorfx (mvpa.clfs.transerror.TransferError attribute) Event (class in mvpa.misc.support) EventDataset (class in mvpa.datasets.event) example example fMRI dataset examples exists() (in module mvpa.base.externals) extend_args() (in module mvpa.clfs.libsmlrc.ctypes_helper) extent (mvpa.atlases.base.XMLBasedAtlas attribute)

F

F-score feature, [Link] feature selection, [Link], [Link], [Link] feature_ids (mvpa.measures.base.Sensitivity attribute) feature_selection (mvpa.clfs.base.FeatureSelectionClassifier attribute) feature_selections (mvpa.featsel.base.FeatureSelectionPipeline attribute) FeatureAttribute (class in mvpa.misc.state) FeatureSelection (class in mvpa.featsel.base) FeatureSelectionClassifier (class in mvpa.clfs.base) FeatureSelectionPipeline (class in mvpa.featsel.base) FeaturewiseDatasetMeasure (class in mvpa.measures.base) Fedora felements (mvpa.featsel.helpers.FractionTailSelector attribute) filter_coord (mvpa.mappers.metric.DescreteMetric attribute) FirstAxisMean() (in module mvpa.misc.transformers) fit (mvpa.clfs.stats.Nonparametric attribute) fit() (mvpa.clfs.stats.AdaptiveNullDist method) (mvpa.clfs.stats.FixedNullDist method) (mvpa.clfs.stats.MCNullDist method) (mvpa.clfs.stats.NullDist method)

FixedErrorThresholdStopCrit (class in mvpa.featsel.helpers) FixedNElementTailSelector (class in mvpa.featsel.helpers) FixedNullDist (class in mvpa.clfs.stats) forward mapping forward() (mvpa.mappers.base.ChainMapper method) (mvpa.mappers.base.CombinedMapper method) (mvpa.mappers.base.Mapper method) (mvpa.mappers.base.ProjectionMapper method) (mvpa.mappers.boxcar.BoxcarMapper method) (mvpa.mappers.mask.MaskMapper method) (mvpa.mappers.samplegroup.SampleGroupMapper method) FractionTailSelector (class in mvpa.featsel.helpers) free software FSL, [Link] FSLAtlas (class in mvpa.atlases.fsl) FslEV3 (class in mvpa.misc.fsl.base) FSLLabelsAtlas (class in mvpa.atlases.fsl) FSLProbabilisticAtlas (class in mvpa.atlases.fsl) funcdata (mvpa.misc.fsl.melodic.MelodicResults attribute)

G

gaussian process regression generateFromXML (mvpa.atlases.base.Label attribute) (mvpa.atlases.base.LabelsLevel attribute) (mvpa.atlases.base.Level attribute) (mvpa.atlases.base.ReferencesLevel attribute) get() (mvpa.base.config.ConfigManager method) (mvpa.misc.state.Collection method) get_argtypes() (in module mvpa.clfs.libsmlrc.ctypes_helper) getAsDType() (mvpa.base.config.ConfigManager method) getboolean() (mvpa.base.config.ConfigManager method) getBreakPoints() (in module mvpa.misc.support) getData() (mvpa.misc.io.base.DataReader method) getEV() (mvpa.misc.fsl.base.FslEV3 method) getInId() (mvpa.mappers.base.Mapper method) (mvpa.mappers.mask.MaskMapper method) getInIds() (mvpa.mappers.mask.MaskMapper method) getInSize() (mvpa.mappers.base.ChainMapper method) (mvpa.mappers.base.CombinedMapper method) (mvpa.mappers.base.Mapper method) (mvpa.mappers.base.ProjectionMapper method) (mvpa.mappers.boxcar.BoxcarMapper method) (mvpa.mappers.mask.MaskMapper method) (mvpa.mappers.samplegroup.SampleGroupMapper method) getLabels_map() (mvpa.clfs.transerror.ConfusionMatrix method) getLabelsMap() (mvpa.datasets.base.Dataset method) getMajorityVote() (mvpa.clfs.knn.kNN method) getMask() (mvpa.mappers.mask.MaskMapper method) getMetric() (mvpa.mappers.base.Mapper method) getMVPattern() (in module mvpa.misc.data_generators) getNColumns() (mvpa.misc.io.base.ColumnData method) getNeighbor() (mvpa.mappers.base.ChainMapper method) (mvpa.mappers.base.CombinedMapper method) (mvpa.mappers.base.Mapper method) (mvpa.mappers.metric.Metric method) getNeighborIn() (mvpa.mappers.base.Mapper method) getNeighbors() (mvpa.mappers.base.Mapper method) (mvpa.mappers.metric.DescreteMetric method) (mvpa.mappers.metric.Metric method) getNEVs() (mvpa.misc.fsl.base.FslEV3 method) getNFeatures() (mvpa.datasets.base.Dataset method) (mvpa.datasets.meta.MetaDataset method)

getNiftiData() (in module mvpa.datasets.nifti) getNiftiFromAnySource() (in module mvpa.datasets.nifti) getNRows() (mvpa.misc.io.base.ColumnData method) getNSamples() (mvpa.datasets.base.Dataset method) (mvpa.datasets.meta.MetaDataset method) (mvpa.misc.io.base.SampleAttributes method) getOutId() (mvpa.mappers.mask.MaskMapper method) getOutSize() (mvpa.mappers.base.ChainMapper method) (mvpa.mappers.base.CombinedMapper method) (mvpa.mappers.base.Mapper method) (mvpa.mappers.base.ProjectionMapper method) (mvpa.mappers.boxcar.BoxcarMapper method) (mvpa.mappers.mask.MaskMapper method) (mvpa.mappers.samplegroup.SampleGroupMapper method) getPropsAsDict() (mvpa.misc.io.base.DataReader method) getRandomSamples() (mvpa.datasets.base.Dataset method) (mvpa.datasets.meta.MetaDataset method) getSamplesPerChunkLabel() (in module mvpa.datasets.miscfx) getSensitivityAnalyzer() (mvpa.clfs.base.BoostedClassifier method) (mvpa.clfs.base.Classifier method) (mvpa.clfs.base.FeatureSelectionClassifier method) (mvpa.clfs.base.MappedClassifier method) (mvpa.clfs.base.ProxyClassifier method) (mvpa.clfs.base.SplitClassifier method) (mvpa.clfs.gpr.GPR method) (mvpa.clfs.lars.LARS method) (mvpa.clfs.smlr.SMLR method) getUniqueLengthNCombinations() (in module mvpa.misc.support) getvalue() (mvpa.misc.state.Collection method) getWeightedVote() (mvpa.clfs.knn.kNN method) Git, [Link] Git repository GPR (class in mvpa.clfs.gpr) GPRLinearWeights (class in mvpa.clfs.gpr) gradient() (mvpa.clfs.kernel.KernelExponential method) (mvpa.clfs.kernel.KernelMatern_3_2 method) (mvpa.clfs.kernel.KernelRationalQuadratic method) GrandMean() (in module mvpa.misc.transformers) group_kwargs() (in module mvpa.misc.args)

H

HalfSplitter (class in mvpa.datasets.splitter) Hamster (class in mvpa.misc.io.hamster) handleDocString() (in module mvpa.base.dochelpers) handlers (mvpa.base.verbosity.Logger attribute) harvest_attribs (mvpa.misc.state.Harvestable attribute) Harvestable (class in mvpa.misc.state)

Harvester (class in mvpa.misc.support) HarvesterCall (class in mvpa.misc.support) hasunique (mvpa.misc.state.AttributeWithUnique attribute) history hlcuster

I

I (mvpa.datasets.base.Dataset attribute) ic (mvpa.misc.fsl.melodic.MelodicResults attribute) ICAMapper (class in mvpa.mappers.ica) icastats (mvpa.misc.fsl.melodic.MelodicResults attribute) Identity() (in module mvpa.misc.transformers) idhash (mvpa.datasets.base.Dataset attribute) idhash() (in module mvpa.misc.support) idsbychunks() (mvpa.datasets.base.Dataset method) idsbylabels() (mvpa.datasets.base.Dataset method) idsonboundaries() (mvpa.datasets.base.Dataset method) IFS (class in mvpa.featsel.ifs) incremental feature search indent (mvpa.base.verbosity.LevelLogger attribute) indentDoc() (in module mvpa.misc.support) index (mvpa.atlases.base.Label attribute) (mvpa.atlases.base.LabelsLevel attribute) index() (mvpa.datasets.base.Dataset method) indexes (mvpa.atlases.base.ReferencesLevel attribute) installation intensities (mvpa.misc.fsl.base.FslEV3 attribute) internals (mvpa.clfs.warehouse.Warehouse attribute) InvalidHyperparameterError (class in mvpa.misc.exceptions) invariant features

inverseCmap() (in module mvpa.misc.plot.base) IPython isActive() (mvpa.misc.state.StateCollection method) isDefault (mvpa.misc.param.Parameter attribute) isEnabled (mvpa.misc.state.StateVariable attribute) isEnabled() (mvpa.misc.state.StateCollection method) isInVolume() (in module mvpa.misc.support) isKnown() (mvpa.misc.state.Collection method) isSet (mvpa.misc.state.CollectableAttribute attribute) isSet() (mvpa.misc.state.Collection method) isSorted() (in module mvpa.misc.support) isTrained() (mvpa.clfs.base.Classifier method) isValidInId() (mvpa.mappers.base.Mapper method) (mvpa.mappers.boxcar.BoxcarMapper method) (mvpa.mappers.mask.MaskMapper method) isValidOutId() (mvpa.mappers.base.Mapper method) (mvpa.mappers.boxcar.BoxcarMapper method) items (mvpa.clfs.warehouse.Warehouse attribute) (mvpa.misc.state.Collection attribute) IterativeRelief (class in mvpa.measures.irelief) IterativeRelief_Devel (class in mvpa.measures.irelief) IterativeReliefOnline (class in mvpa.measures.irelief) IterativeReliefOnline_Devel (class in mvpa.measures.irelief)

K

k() (mvpa.measures.irelief.IterativeRelief method) k-nearest-neighbour Kernel (class in mvpa.clfs.kernel) kernel (mvpa.clfs.gpr.GPR attribute) KernelConstant (class in mvpa.clfs.kernel) KernelExponential (class in mvpa.clfs.kernel) KernelLinear (class in mvpa.clfs.kernel) KernelMatern_3_2 (class in mvpa.clfs.kernel)

KernelMatern_5_2 (class in mvpa.clfs.kernel) KernelParameter (class in mvpa.misc.param) KernelRationalQuadratic (class in mvpa.clfs.kernel) KernelSquaredExponential (class in mvpa.clfs.kernel) kNN (class in mvpa.clfs.knn)

L

L (mvpa.datasets.base.Dataset attribute) L1Normed() (in module mvpa.misc.transformers) L2Normed() (in module mvpa.misc.transformers) Label (class in mvpa.atlases.base) labelPoint() (mvpa.atlases.base.XMLBasedAtlas method) labels (mvpa.atlases.base.LabelsLevel attribute) (mvpa.clfs.transerror.ClassifierError attribute) (mvpa.clfs.transerror.ConfusionMatrix attribute) (mvpa.datasets.base.Dataset attribute) labels2chunks() (in module mvpa.misc.io.base) labels_map (mvpa.clfs.transerror.ConfusionMatrix attribute) (mvpa.datasets.base.Dataset attribute) LabelsAtlas (class in mvpa.atlases.base) LabelsLevel (class in mvpa.atlases.base) labelVoxel() (mvpa.atlases.base.LabelsAtlas method) (mvpa.atlases.base.ReferencesAtlas method) (mvpa.atlases.fsl.FSLProbabilisticAtlas method) LARS (class in mvpa.clfs.lars) LARSWeights (class in mvpa.clfs.lars) least angle regression leastSqFit() (in module mvpa.misc.fx)

leave-one-out Level (class in mvpa.atlases.base) level (mvpa.base.verbosity.LevelLogger attribute) LevelLogger (class in mvpa.base.verbosity) levels_dict (mvpa.atlases.base.XMLBasedAtlas attribute) levelsListing() (mvpa.atlases.base.ReferencesAtlas method) (mvpa.atlases.base.XMLBasedAtlas method) levelType (mvpa.atlases.base.Level attribute) lfprev (mvpa.base.verbosity.Logger attribute) LIBSVM, [Link] license linear_awgn() (in module mvpa.misc.data_generators) LinearSVMWeights (class in mvpa.clfs.libsvmc.sens) (class in mvpa.clfs.libsvmc.svm) (class in mvpa.clfs.sg.sens) listing (mvpa.misc.state.Collection attribute) listing() (mvpa.clfs.warehouse.Warehouse method) loadAtlas() (mvpa.atlases.base.XMLBasedAtlas method) locations() (mvpa.misc.io.base.SensorLocations method) Logger (class in mvpa.base.verbosity) logistic regression

M

MacOS X, [Link], [Link] mahalanobisDistance() (in module mvpa.clfs.distance) makeFlobs() (in module mvpa.misc.fsl.flobs) manhattenDistance() (in module mvpa.clfs.distance) map2Nifti() (mvpa.datasets.nifti.ERNiftiDataset method) (mvpa.datasets.nifti.NiftiDataset method) mapForward() (mvpa.datasets.mapped.MappedDataset method) MapOverlap (class in mvpa.misc.support) MappedClassifier (class in mvpa.clfs.base) MappedClassifierSensitivityAnalyzer (class in mvpa.measures.base) MappedDataset (class in mvpa.datasets.mapped) mapper, [Link] Mapper (class in mvpa.mappers.base) mapper (mvpa.clfs.base.MappedClassifier attribute) (mvpa.datasets.mapped.MappedDataset attribute) mapReverse() (mvpa.datasets.mapped.MappedDataset method) (mvpa.datasets.meta.MetaDataset method) mapSelfReverse() (mvpa.datasets.mapped.MappedDataset method) mask (mvpa.mappers.mask.MaskMapper attribute) maskclf (mvpa.clfs.base.FeatureSelectionClassifier attribute) MaskedDataset (class in mvpa.datasets.masked) MaskMapper (class in mvpa.mappers.mask) Matlab matplotlib matrices (mvpa.clfs.transerror.ConfusionMatrix attribute) matrix (mvpa.clfs.transerror.ConfusionMatrix attribute) max_log_marginal_likelihood() (mvpa.clfs.model_selector.ModelSelector method) maxcount (mvpa.base.WarningLog attribute) MaximalVote (class in mvpa.clfs.base) McFlirtParams (class in mvpa.misc.fsl.base) MCNullDist (class in mvpa.clfs.stats) MeanMismatchErrorFx (class in mvpa.misc.errorfx) meanPowerFx() (in module mvpa.misc.errorfx) MeanPrediction (class in mvpa.clfs.base) measure, [Link], [Link], [Link], [Link] MelodicResults (class in mvpa.misc.fsl.melodic) meta measures MetaDataset (class in mvpa.datasets.meta) Metric (class in mvpa.mappers.metric) metric (mvpa.mappers.base.Mapper attribute) misc MNI2Tal_Lancaster07FSL() (in module mvpa.atlases.transformation) MNI2Tal_Lancaster07pooled() (in module mvpa.atlases.transformation) MNI2Tal_MatthewBrett (class in mvpa.atlases.transformation) MNI2Tal_MeyerLindenberg98() (in module mvpa.atlases.transformation) MNI2Tal_YOHflirt() (in module mvpa.atlases.transformation) mode (mvpa.featsel.helpers.ElementSelector attribute) model (mvpa.clfs.libsvmc.svm.SVM attribute) ModelSelector (class in mvpa.clfs.model_selector) monte-carlo motion correction MulticlassClassifier (class in mvpa.clfs.base) multipleChunks() (in module mvpa.misc.data_generators) MultiStopCrit (class in mvpa.featsel.helpers) MVPA mvpa (module) MVPA toolbox for Matlab, [Link] mvpa.algorithms (module) mvpa.algorithms.cvtranserror (module) mvpa.atlases (module) mvpa.atlases.base (module) mvpa.atlases.fsl (module) mvpa.atlases.transformation (module) mvpa.atlases.warehouse (module) mvpa.base (module) mvpa.base.config (module) mvpa.base.dochelpers (module) mvpa.base.externals (module) mvpa.base.verbosity (module) mvpa.clfs (module) mvpa.clfs.base (module) mvpa.clfs.blr (module) mvpa.clfs.distance (module) mvpa.clfs.gpr (module) mvpa.clfs.kernel (module) mvpa.clfs.knn (module) mvpa.clfs.lars (module) mvpa.clfs.libsmlrc (module) mvpa.clfs.libsmlrc.ctypes_helper (module) mvpa.clfs.libsvmc (module) mvpa.clfs.libsvmc.sens (module) mvpa.clfs.libsvmc.svm (module) mvpa.clfs.model_selector (module) mvpa.clfs.plr (module) mvpa.clfs.ridge (module) mvpa.clfs.sg (module)

mvpa.clfs.sg.sens (module) mvpa.clfs.sg.svm (module) mvpa.clfs.smlr (module) mvpa.clfs.stats (module) mvpa.clfs.svm (module) mvpa.clfs.transerror (module) mvpa.clfs.warehouse (module) mvpa.datasets (module) mvpa.datasets.base (module) mvpa.datasets.channel (module) mvpa.datasets.eep (module) mvpa.datasets.event (module) mvpa.datasets.mapped (module) mvpa.datasets.masked (module) mvpa.datasets.meta (module) mvpa.datasets.miscfx (module) mvpa.datasets.miscfx_sp (module) mvpa.datasets.nifti (module) mvpa.datasets.splitter (module) mvpa.featsel (module) mvpa.featsel.base (module) mvpa.featsel.helpers (module) mvpa.featsel.ifs (module) mvpa.featsel.rfe (module) mvpa.mappers (module) mvpa.mappers.array (module) mvpa.mappers.base (module) mvpa.mappers.boxcar (module) mvpa.mappers.ica (module) mvpa.mappers.mask (module) mvpa.mappers.metric (module) mvpa.mappers.pca (module) mvpa.mappers.samplegroup (module) mvpa.mappers.svd (module) mvpa.mappers.wavelet (module) mvpa.measures (module) mvpa.measures.anova (module) mvpa.measures.base (module) mvpa.measures.corrcoef (module) mvpa.measures.irelief (module) mvpa.measures.noiseperturbation (module) mvpa.measures.pls (module) mvpa.measures.searchlight (module) mvpa.measures.splitmeasure (module) mvpa.misc (module) mvpa.misc.args (module) mvpa.misc.bv (module) mvpa.misc.bv.base (module) mvpa.misc.cmdline (module) mvpa.misc.data_generators (module) mvpa.misc.errorfx (module) mvpa.misc.exceptions (module) mvpa.misc.fsl (module) mvpa.misc.fsl.base (module) mvpa.misc.fsl.flobs (module) mvpa.misc.fsl.melodic (module) mvpa.misc.fx (module) mvpa.misc.io (module) mvpa.misc.io.base (module) mvpa.misc.io.eepbin (module) mvpa.misc.io.hamster (module) mvpa.misc.io.meg (module) mvpa.misc.param (module) mvpa.misc.plot (module) mvpa.misc.plot.base (module) mvpa.misc.plot.erp (module) mvpa.misc.plot.topo (module) mvpa.misc.state (module) mvpa.misc.stats (module) mvpa.misc.support (module) mvpa.misc.transformers (module) mvpa.misc.vproperty (module) mvpa.suite (module) MVPA_DEBUG, [Link], [Link] MVPA_DEBUG_METRICS MVPA_EXAMPLES_INTERACTIVE MVPA_QUICKTEST MVPA_SEED MVPA_SVM_BACKEND MVPA_TESTS_LABILE, [Link] MVPA_TESTS_QUICK, [Link] MVPA_VERBOSE MVPA_VERBOSE_OUTPUT MVPA_WARNINGS_BT MVPA_WARNINGS_COUNT, [Link] MVPA_WARNINGS_SUPPRESS

N

name (mvpa.misc.state.CollectableAttribute attribute) (mvpa.misc.state.Collection attribute) names (mvpa.misc.state.Collection attribute) nanmean() (in module mvpa.clfs.stats) NBackHistoryStopCrit (class in mvpa.featsel.helpers) nchannels (mvpa.misc.io.eepbin.EEPBin attribute) ncolumns (mvpa.misc.io.base.ColumnData attribute) nelements (mvpa.featsel.helpers.FixedNElementTailSelector attribute) nevs (mvpa.misc.fsl.base.FslEV3 attribute) nfeatures (mvpa.datasets.base.Dataset attribute) (mvpa.datasets.meta.MetaDataset attribute) (mvpa.mappers.base.Mapper attribute) NFoldSplitter (class in mvpa.datasets.splitter) nic (mvpa.misc.fsl.melodic.MelodicResults attribute) NIfTI, [Link] NiftiDataset (class in mvpa.datasets.nifti) niftihdr (mvpa.datasets.nifti.ERNiftiDataset attribute) (mvpa.datasets.nifti.NiftiDataset attribute) Nlevels (mvpa.atlases.base.PyMVPAAtlas attribute)

noise perturbation NoisePerturbationSensitivity (class in mvpa.measures.noiseperturbation) noisy_2d_fx() (in module mvpa.misc.data_generators) NoneSplitter (class in mvpa.datasets.splitter) Nonparametric (class in mvpa.clfs.stats) normalFeatureDataset() (in module mvpa.misc.data_generators) normalFeatureDataset__() (in module mvpa.misc.data_generators) nrows (mvpa.misc.io.base.ColumnData attribute) nsamples (mvpa.datasets.base.Dataset attribute) (mvpa.datasets.meta.MetaDataset attribute) (mvpa.misc.io.base.SampleAttributes attribute) (mvpa.misc.io.eepbin.EEPBin attribute) NStepsStopCrit (class in mvpa.featsel.helpers) ntimepoints (mvpa.misc.io.eepbin.EEPBin attribute) null_dist (mvpa.clfs.transerror.TransferError attribute) (mvpa.measures.base.DatasetMeasure attribute) NullDist (class in mvpa.clfs.stats) NumPy

O

O (mvpa.datasets.mapped.MappedDataset attribute) OddEvenSplitter (class in mvpa.datasets.splitter) OnceLogger (class in mvpa.base.verbosity) OneMinus() (in module mvpa.misc.transformers) OneWayAnova (class in mvpa.measures.anova) onsets (mvpa.misc.fsl.base.FslEV3 attribute) OpenSUSE, [Link] optimization

OptionGroups (class in mvpa.misc.cmdline) Options (class in mvpa.misc.cmdline) origids (mvpa.datasets.base.Dataset attribute) origin (mvpa.atlases.base.XMLBasedAtlas attribute) OverAxis (class in mvpa.misc.transformers) owner (mvpa.misc.state.Collection attribute)

P

p() (mvpa.clfs.stats.NullDist method) Parameter (class in mvpa.misc.param) ParameterCollection (class in mvpa.misc.state) path (mvpa.misc.fsl.melodic.MelodicResults attribute) PCAMapper (class in mvpa.mappers.pca) penalized logistic regression percentCorrect (mvpa.clfs.transerror.ConfusionMatrix attribute) permutation permuteLabels() (mvpa.datasets.base.Dataset method) (mvpa.datasets.meta.MetaDataset method) plot() (mvpa.clfs.transerror.ConfusionMatrix method) (mvpa.clfs.transerror.ROCCurve method) (mvpa.misc.fsl.base.McFlirtParams method) plotBars() (in module mvpa.misc.plot.base) plotDatasetChunks() (in module mvpa.misc.plot.base) plotERP() (in module mvpa.misc.plot.erp) plotERPs() (in module mvpa.misc.plot.erp) plotFeatureHist() (in module mvpa.misc.plot.base) plotHeadOutline() (in module mvpa.misc.plot.topo) plotHeadTopography() (in module mvpa.misc.plot.topo) plotSamplesDistance() (in module mvpa.misc.plot.base)

plotting example PLR (class in mvpa.clfs.plr) PLS (class in mvpa.measures.pls) pnorm_w_python() (in module mvpa.clfs.distance) predict() (mvpa.clfs.base.Classifier method) PredictionsCombiner (class in mvpa.clfs.base) printsetid (mvpa.base.verbosity.SetLogger attribute) process_args() (in module mvpa.clfs.libsmlrc.ctypes_helper) processing object, [Link] progress tracking proj (mvpa.mappers.base.ProjectionMapper attribute) ProjectionMapper (class in mvpa.mappers.base) props (mvpa.misc.io.base.DataReader attribute) ProxyClassifier (class in mvpa.clfs.base) ProxyClassifierSensitivityAnalyzer (class in mvpa.measures.base) pureMultivariateSignal() (in module mvpa.misc.data_generators) PyMatlab PyMVPA poster PyMVPAAtlas (class in mvpa.atlases.base) PyNIfTI

R

R random number generation RangeElementSelector (class in mvpa.featsel.helpers) RankOrder() (in module mvpa.misc.transformers) rebuildSamples() (mvpa.datasets.meta.MetaDataset method) recommended software recon (mvpa.mappers.base.ProjectionMapper attribute) recursive feature selection redirecting output references ReferencesAtlas (class in mvpa.atlases.base) ReferencesLevel (class in mvpa.atlases.base) register() (mvpa.base.verbosity.SetLogger method) registered (mvpa.base.verbosity.SetLogger attribute) RegressionStatistics (class in mvpa.clfs.transerror) RelativeRMSErrorFx (class in mvpa.misc.errorfx) releases reload() (mvpa.base.config.ConfigManager method) relvar_per_ic (mvpa.misc.fsl.melodic.MelodicResults attribute) remove() (mvpa.misc.state.Collection method) removeInvariantFeatures() (in module mvpa.datasets.miscfx) repredict() (mvpa.clfs.base.Classifier method) required software resample() (mvpa.datasets.channel.ChannelDataset method) reset() (mvpa.clfs.kernel.Kernel method) (mvpa.clfs.kernel.KernelLinear method) (mvpa.clfs.kernel.KernelSquaredExponential method) (mvpa.clfs.transerror.SummaryStatistics method) (mvpa.misc.state.AttributeWithUnique method) (mvpa.misc.state.ClassWithCollections method) (mvpa.misc.state.CollectableAttribute method) (mvpa.misc.state.Collection method) (mvpa.misc.state.StateVariable method)

resetvalue() (mvpa.misc.param.Parameter method) (mvpa.misc.state.ParameterCollection method) retrain() (mvpa.clfs.base.Classifier method) reuseAbsolutePath() (in module mvpa.misc.support) reverse mapping reverse() (mvpa.mappers.base.ChainMapper method) (mvpa.mappers.base.CombinedMapper method) (mvpa.mappers.base.Mapper method) (mvpa.mappers.base.ProjectionMapper method) (mvpa.mappers.boxcar.BoxcarMapper method) (mvpa.mappers.mask.MaskMapper method) (mvpa.mappers.samplegroup.SampleGroupMapper method) ReverseRankOrder() (in module mvpa.misc.transformers) review RFE (class in mvpa.featsel.rfe) RFEHistory2maps() (in module mvpa.misc.support) ridge regression RidgeReg (class in mvpa.clfs.ridge) RMSErrorFx (class in mvpa.misc.errorfx) RNG ROCCurve (class in mvpa.clfs.transerror) ROCs (mvpa.clfs.transerror.ROCCurve attribute) rootMeanPowerFx() (in module mvpa.misc.errorfx) RPy, [Link] rstUnderline() (in module mvpa.base.dochelpers)

S

S (mvpa.datasets.base.Dataset attribute) sample, [Link] sample attribute SampleAttribute (class in mvpa.misc.state) SampleAttributes (class in mvpa.misc.io.base) SampleAttributesCollection (class in mvpa.misc.state) SampleGroupMapper (class in mvpa.mappers.samplegroup) samples (mvpa.datasets.base.Dataset attribute) samples_original (mvpa.datasets.mapped.MappedDataset attribute) samplesperchunk (mvpa.datasets.base.Dataset attribute) samplesperlabel (mvpa.datasets.base.Dataset attribute) samplingrate (mvpa.datasets.channel.ChannelDataset attribute) save() (mvpa.base.config.ConfigManager method) SciPy searchlight, [Link] Searchlight (class in mvpa.measures.searchlight) SecondAxisMaxOfAbs() (in module mvpa.misc.transformers) SecondAxisMean() (in module mvpa.misc.transformers) SecondAxisSumOfAbs() (in module mvpa.misc.transformers) seed() (in module mvpa) select() (mvpa.datasets.base.Dataset method) selectFeatures() (mvpa.datasets.base.Dataset method) (mvpa.datasets.mapped.MappedDataset method) (mvpa.datasets.meta.MetaDataset method) selectFeaturesByMask() (mvpa.datasets.masked.MaskedDataset method) selectOut() (mvpa.mappers.base.ChainMapper method) (mvpa.mappers.base.CombinedMapper method) (mvpa.mappers.base.Mapper method) (mvpa.mappers.base.ProjectionMapper method) (mvpa.mappers.boxcar.BoxcarMapper method) (mvpa.mappers.mask.MaskMapper method) (mvpa.mappers.samplegroup.SampleGroupMapper method) (mvpa.mappers.svd.SVDMapper method) selectSamples() (mvpa.datasets.base.Dataset method) (mvpa.datasets.meta.MetaDataset method) (mvpa.misc.io.base.ColumnData method) sensitivity, [Link], [Link], [Link] Sensitivity (class in mvpa.measures.base) sensitivity_analyzer (mvpa.featsel.base.SensitivityBasedFeatureSelection attribute) SensitivityBasedFeatureSelection (class in mvpa.featsel.base) SensorLocations (class in mvpa.misc.io.base) set_hyperparameters() (mvpa.clfs.blr.BLR method) (mvpa.clfs.gpr.GPR method) (mvpa.clfs.kernel.KernelConstant method) (mvpa.clfs.kernel.KernelExponential method) (mvpa.clfs.kernel.KernelLinear method) (mvpa.clfs.kernel.KernelMatern_3_2 method) (mvpa.clfs.kernel.KernelRationalQuadratic method) (mvpa.clfs.kernel.KernelSquaredExponential method) setActiveFromString() (mvpa.base.verbosity.SetLogger method) setCoordT() (mvpa.atlases.base.XMLBasedAtlas method) setDefault() (mvpa.misc.param.Parameter method) setDistance() (mvpa.atlases.base.ReferencesAtlas method) setLabels_map() (mvpa.clfs.transerror.ConfusionMatrix method) setLabelsMap() (mvpa.datasets.base.Dataset method) SetLogger (class in mvpa.base.verbosity) setMetric() (mvpa.mappers.base.Mapper method) setNPerLabel() (mvpa.datasets.splitter.Splitter method) setReferenceLevel() (mvpa.atlases.base.ReferencesAtlas method) sets (mvpa.clfs.transerror.SummaryStatistics attribute) setSamplesDType() (mvpa.datasets.base.Dataset method) (mvpa.datasets.meta.MetaDataset method)

setTestDataset() (mvpa.clfs.base.FeatureSelectionClassifier method) settings setvalue() (mvpa.misc.state.Collection method) Shogun singleGammaHRF() (in module mvpa.misc.fx) sinModulated() (in module mvpa.misc.data_generators) SMLR, [Link] (class in mvpa.clfs.smlr) SMLRWeights (class in mvpa.clfs.smlr) smodes (mvpa.misc.fsl.melodic.MelodicResults attribute) solve() (mvpa.clfs.model_selector.ModelSelector method) source package space (mvpa.atlases.base.PyMVPAAtlas attribute) spaceFlavor (mvpa.atlases.base.PyMVPAAtlas attribute) spaceT (mvpa.atlases.base.XMLBasedAtlas attribute) SpaceTransformation (class in mvpa.atlases.transformation) sparse multinomial logistic regression split_kwargs() (in module mvpa.misc.args) splitcfg() (mvpa.datasets.splitter.Splitter method) SplitClassifier (class in mvpa.clfs.base) splitDataset() (mvpa.datasets.splitter.Splitter method) SplitFeaturewiseMeasure (class in mvpa.measures.splitmeasure) splitter Splitter (class in mvpa.datasets.splitter) splitter (mvpa.algorithms.cvtranserror.CrossValidatedTransferError attribute) (mvpa.clfs.base.SplitClassifier attribute) splitting measures squared_euclidean_distance() (in module mvpa.clfs.distance) StateCollection (class in mvpa.misc.state) states StateVariable (class in mvpa.misc.state) StaticDatasetMeasure (class in mvpa.measures.base) statistical testing stats (mvpa.clfs.transerror.SummaryStatistics attribute) steps (mvpa.featsel.helpers.NBackHistoryStopCrit attribute) (mvpa.featsel.helpers.NStepsStopCrit attribute) stepwise_regression() (in module mvpa.clfs.libsmlrc) StoppingCriterion (class in mvpa.featsel.helpers) strategy (mvpa.datasets.splitter.Splitter attribute) substractBaseline() (mvpa.datasets.channel.ChannelDataset method) suggested software summaries (mvpa.clfs.transerror.SummaryStatistics attribute) summary() (mvpa.clfs.base.Classifier method) (mvpa.clfs.base.CombinedClassifier method) (mvpa.clfs.base.ProxyClassifier method) (mvpa.clfs.libsvmc.svm.SVM method) (mvpa.datasets.base.Dataset method) summary_labels() (mvpa.datasets.base.Dataset method) SummaryStatistics (class in mvpa.clfs.transerror) support vector machine sv (mvpa.mappers.svd.SVDMapper attribute) SVD SVDMapper (class in mvpa.mappers.svd) SVM, [Link], [Link] (class in mvpa.clfs.libsvmc.svm) (class in mvpa.clfs.sg.svm) svm (mvpa.clfs.sg.svm.SVM attribute) SWIG syntactic sugaring

T

t0 (mvpa.datasets.channel.ChannelDataset attribute) (mvpa.misc.io.eepbin.EEPBin attribute) table2string() (in module mvpa.base.dochelpers) tail (mvpa.clfs.stats.NullDist attribute) TailSelector (class in mvpa.featsel.helpers) Tal2MNI_Lancaster07FSL() (in module mvpa.atlases.transformation) Tal2MNI_Lancaster07pooled() (in module mvpa.atlases.transformation) Tal2MNI_YOHflirt() (in module mvpa.atlases.transformation) TaskPLS (class in mvpa.measures.pls) testAllDependencies() (in module mvpa.base.externals) testdataset (mvpa.clfs.base.FeatureSelectionClassifier attribute) text (mvpa.atlases.base.Label attribute) textbook threshold (mvpa.featsel.helpers.FixedErrorThresholdStopCrit attribute) tmodes (mvpa.misc.fsl.melodic.MelodicResults attribute) toarray() (mvpa.misc.bv.base.BrainVoyagerRTC method) (mvpa.misc.fsl.base.McFlirtParams method) todo toEvents() (mvpa.misc.fsl.base.FslEV3 method) tofile() (mvpa.misc.fsl.base.FslEV3 method) (mvpa.misc.fsl.base.McFlirtParams method) (mvpa.misc.io.base.ColumnData method) (mvpa.misc.io.base.SampleAttributes method)

toRealSpace() (mvpa.atlases.transformation.SpaceTransformation method) toVoxelSpace() (mvpa.atlases.transformation.SpaceTransformation method) tr (mvpa.misc.fsl.melodic.MelodicResults attribute) train() (mvpa.clfs.base.Classifier method) (mvpa.clfs.base.PredictionsCombiner method) (mvpa.mappers.base.ChainMapper method) (mvpa.mappers.base.CombinedMapper method) (mvpa.mappers.base.Mapper method) (mvpa.mappers.base.ProjectionMapper method) (mvpa.mappers.samplegroup.SampleGroupMapper method) traindataset (mvpa.clfs.sg.svm.SVM attribute) trained (mvpa.clfs.base.Classifier attribute) transerror (mvpa.algorithms.cvtranserror.CrossValidatedTransferError attribute) transfer error TransferError (class in mvpa.clfs.transerror) transformWithBoxcar() (in module mvpa.misc.support) truevar_per_ic (mvpa.misc.fsl.melodic.MelodicResults attribute) TuebingenMEG (class in mvpa.misc.io.meg) TuebingenMEGSensorLocations (class in mvpa.misc.io.base)

U

Ubuntu UC (mvpa.datasets.base.Dataset attribute) UL (mvpa.datasets.base.Dataset attribute) uniquechunks (mvpa.datasets.base.Dataset attribute) uniquelabels (mvpa.datasets.base.Dataset attribute) uniqueValues (mvpa.misc.state.AttributeWithUnique attribute) unittests univariate UnknownStateError (class in mvpa.misc.exceptions) untrain() (mvpa.clfs.base.BoostedClassifier method) (mvpa.clfs.base.Classifier method) (mvpa.clfs.base.ClassifierCombiner method) (mvpa.clfs.base.CombinedClassifier method) (mvpa.clfs.base.FeatureSelectionClassifier method) (mvpa.clfs.base.ProxyClassifier method) (mvpa.clfs.gpr.GPR method) (mvpa.clfs.knn.kNN method) (mvpa.clfs.libsvmc.svm.SVM method) (mvpa.clfs.sg.svm.SVM method)

V

validation data value (mvpa.misc.param.Parameter attribute) (mvpa.misc.state.CollectableAttribute attribute) var (mvpa.mappers.pca.PCAMapper attribute) Variance1SVFx (class in mvpa.misc.errorfx)

verbosity, [Link] version (mvpa.atlases.base.XMLBasedAtlas attribute) voxdim (mvpa.atlases.base.XMLBasedAtlas attribute) VProperty (class in mvpa.misc.vproperty)

W

Warehouse (class in mvpa.clfs.warehouse) warning, [Link] WarningLog (class in mvpa.base) WaveletPacketMapper (class in mvpa.mappers.wavelet) WaveletTransformationMapper (class in mvpa.mappers.wavelet) weights