Index

_

__init__() (nipype.caching.memory.PipeFunc method)

A

Add AddCSVColumn AffineRegistration Allineate Analyze2nii AnalyzeHeader ApplyDeformations ApplyMask, [1] ApplyTransform ApplyTransforms

ApplyVolTransform ApplyWarp ApplyXfm ArtifactDetect AssertEqual Atropos Automask AverageNetworks AvScale

B

BBRegister BEDPOSTX BET Binarize BinaryMaths BRAINSDemonWarp

BRAINSFit BRAINSResample BRAINSROIAuto BrickStat BSplineDeformableRegistration BuildTemplate

C

cache() (nipype.caching.Memory method) Calc CalcCoregAffine Camino2Trackvis Cast CFFConverter ChangeDataType CheckerBoard clear_previous_runs() (nipype.caching.Memory method) clear_runs_since() (nipype.caching.Memory method) Cluster CoherenceAnalyzer ComputeEigensystem ComputeFractionalAnisotropy ComputeMask ComputeMeanDiffusivity

ComputeSUVBodyWeight ComputeTensorTrace Concatenate ConfidenceConnected Conmap ConstrainedSphericalDeconvolution ContrastMgr ConvertXFM Copy Coregister CreateMatrix CreateNifti CreateNodes CreateWarped CurvatureAnisotropicDiffusion

D

DARTEL DARTELNorm2MNI DataGrabber DataSink Dcm2nii Despike Detrend DICOMConvert DicomToNrrdConverter DiffusionTensorEstimation DiffusionTensorMathematics DiffusionTensorStreamlineTrack DiffusionTensorTest

DiffusionWeightedMasking DilateImage Distance DistanceMap DT2NIfTI DTIFit, [1] DTIRecon DTITracker DTLUTGen DWI2SphericalHarmonicsImage DWI2Tensor dwiNoiseFilter dwiUNLM

E

EddyCorrect EPIDeWarp Erode ErodeImage EstimateContrast, [1]

EstimateModel EstimateResponseForSH extractNrrdVectorIndex ExtractROI

F

FactorialDesign FAST FEAT FEATModel FEATRegister FILMGLS FilterRegressor Fim FindTheBiggest FIRST

FitGLM FitMSParams FLAMEO FLIRT FmriRealign4d FNIRT Fourier FreeSurferSource FUGUE Function

G

GenerateWhiteMatterMask GenWarpFields GLMFit gtractAnisotropyMap gtractAverageBvalues gtractClipAnisotropy gtractConcatDwi gtractCopyImageOrientation gtractCoRegAnatomy gtractCoregBvalues gtractCostFastMarching

gtractImageConformity gtractInvertBSplineTransform gtractInvertDeformationField gtractInvertRigidTransform gtractResampleAnisotropy gtractResampleB0 gtractResampleCodeImage gtractResampleDWIInPlace gtractTensor gtractTransformToDeformationField Gunzip

H

HARDIMat

I

IdentityInterface Image2Voxel ImageMaths ImageMeants

ImageStats IOBase IsotropicSmooth

J

jointLMMSE

L

L2Model Label2Vol

Level1Design, [1]

M

MakeAverageSubject MakeDyadicVectors Maskave MathsCommand Matlab2CSV MCFLIRT MeanImage MedianFilter3D MELODIC Memory (class in nipype.caching) Merge, [1], [2] MergeCNetworks MergeCSVFiles ModelFit ModifyAffine

MRConvert MRIConvert MRIMarchingCubes MRIsConvert MRISPreproc MRITessellate MRMultiply MRTransform MRTrix2TrackVis MRTrixViewer MS_LDA MultiImageMaths MultipleRegressDesign MultipleRegressionDesign MySQLSink

N

N4BiasFieldCorrection NetworkBasedStatistic NetworkXMetrics NewSegment NIfTIDT2Camino nipype.algorithms.misc (module) nipype.algorithms.modelgen (module) nipype.interfaces.cmtk.cmtk (module) nipype.interfaces.cmtk.nbs (module) nipype.interfaces.cmtk.nx (module) nipype.interfaces.cmtk.parcellation (module) nipype.interfaces.io (module) nipype.interfaces.mrtrix.convert (module) nipype.interfaces.mrtrix.tensors (module) nipype.pkg_info (module) nipype.workflows.dmri.camino.connectivity_mapping (module) nipype.workflows.dmri.camino.diffusion (module)

nipype.workflows.dmri.camino.group_connectivity (module) nipype.workflows.dmri.connectivity.group_connectivity (module) nipype.workflows.dmri.connectivity.nx (module) nipype.workflows.dmri.fsl.dti (module) nipype.workflows.dmri.fsl.tbss (module) nipype.workflows.dmri.mrtrix.connectivity_mapping (module) nipype.workflows.dmri.mrtrix.diffusion (module) nipype.workflows.dmri.mrtrix.group_connectivity (module) nipype.workflows.fmri.fsl.estimate (module) nipype.workflows.fmri.fsl.preprocess (module) nipype.workflows.fmri.spm.preprocess (module) nipype.workflows.misc.utils (module) nipype.workflows.rsfmri.fsl.resting (module) nipype.workflows.smri.freesurfer.bem (module) nipype.workflows.smri.freesurfer.utils (module) Normalize

O

ODFRecon ODFTracker OneSampleTTest

OneSampleTTestDesign Overlap Overlay

P

PairedTTestDesign Parcellate ParseDICOMDir PickAtlas PicoPDFs PipeFunc (class in nipype.caching.memory) PlotMotionParams

PlotTimeSeries PowerSpectrum PRELUDE ProbabilisticSphericallyDeconvolutedStreamlineTrack ProbTrackX ProcStreamlines ProjThresh

R

Randomise Realign ReconAll Refit Rename Resample, [1]

ResampleDTI Reslice RobustRegister ROIGen ROIStats

S

SampleToSurface Segment SegStats Select Similarity SimpleThreshold SkullStrip Slicer SlicerCommandLine, [1] SliceTimer SliceTiming SMM Smooth, [1], [2] SmoothEstimate SmoothTessellation SpatialFilter

SpecifyModel SpecifySparseModel SpecifySPMModel SphericallyDeconvolutedStreamlineTrack SplineFilter Split, [1] SQLiteSink StimulusCorrelation StreamlineTrack SurfaceSmooth SurfaceSnapshots SurfaceTransform SUSAN SwapDimensions SynthesizeFLASH

T

TCat TCorrelate TemporalFilter Tensor2ApparentDiffusion Tensor2FractionalAnisotropy Tensor2Vector Threshold, [1], [2] ThresholdStatistics To3D Track TrackBallStick TrackBayesDirac

TrackBootstrap TrackDensityMap TrackDT TrackPICo Tracks2Prob Trackvis2Camino TractShredder TractSkeleton TShift TSNR TStat TwoSampleTTestDesign

U

UnaryMaths

UnpackSDICOMDir

V

VBRAINSDemonWarp VecReg

Volreg VtkStreamlines

W

Warp WarpImageMultiTransform

WarpTimeSeriesImageMultiTransform WatershedBEM

X

XFibres XNATSink

XNATSource

Z

ZCutUp