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Interfaces and Algorithms
¶
Release:
0.8.0
Date:
May 13, 2013, 20:30 PDT
nipype
check_for_updates()
algorithms.icc
ICC
ICC_rep_anova()
algorithms.misc
AddCSVColumn
CreateNifti
Distance
Gunzip
Matlab2CSV
MergeCSVFiles
ModifyAffine
Overlap
PickAtlas
SimpleThreshold
TSNR
makefmtlist()
maketypelist()
matlab2csv()
merge_csvs()
remove_identical_paths()
replaceext()
algorithms.modelgen
SpecifyModel
SpecifySPMModel
SpecifySparseModel
gcd()
gen_info()
orth()
scale_timings()
spm_hrf()
algorithms.rapidart
ArtifactDetect
StimulusCorrelation
interfaces.afni.preprocess
Allineate
AutoTcorrelate
Autobox
Automask
Bandpass
BlurInMask
BrickStat
Calc
Copy
Despike
Detrend
Fim
Fourier
Maskave
Merge
ROIStats
Refit
Resample
SkullStrip
TCat
TCorrMap
TCorrelate
TShift
TStat
To3D
Volreg
Warp
ZCutUp
interfaces.ants.legacy
GenWarpFields
antsIntroduction
buildtemplateparallel
interfaces.ants.registration
Registration
interfaces.ants.resampling
ApplyTransforms
WarpImageMultiTransform
WarpTimeSeriesImageMultiTransform
interfaces.ants.segmentation
Atropos
N4BiasFieldCorrection
interfaces.ants.utils
AverageAffineTransform
AverageImages
JacobianDeterminant
MultiplyImages
interfaces.c3
C3dAffineTool
interfaces.camino.connectivity
Conmap
interfaces.camino.convert
AnalyzeHeader
DT2NIfTI
Image2Voxel
NIfTIDT2Camino
ProcStreamlines
TractShredder
VtkStreamlines
interfaces.camino.dti
ComputeEigensystem
ComputeFractionalAnisotropy
ComputeMeanDiffusivity
ComputeTensorTrace
DTIFit
DTLUTGen
ModelFit
PicoPDFs
Track
TrackBallStick
TrackBayesDirac
TrackBootstrap
TrackDT
TrackPICo
interfaces.camino2trackvis.convert
Camino2Trackvis
Trackvis2Camino
interfaces.cmtk.cmtk
CreateMatrix
CreateNodes
ROIGen
cmat()
create_allpoints_cmat()
create_endpoints_array()
create_nodes()
get_connectivity_matrix()
get_rois_crossed()
length()
save_fibers()
interfaces.cmtk.convert
CFFConverter
MergeCNetworks
interfaces.cmtk.nbs
NetworkBasedStatistic
ntwks_to_matrices()
interfaces.cmtk.nx
AverageNetworks
NetworkXMetrics
add_dicts_by_key()
add_edge_data()
add_node_data()
average_networks()
compute_dict_measures()
compute_edge_measures()
compute_network_measures()
compute_node_measures()
compute_singlevalued_measures()
fix_keys_for_gexf()
read_unknown_ntwk()
remove_all_edges()
interfaces.cmtk.parcellation
Parcellate
create_annot_label()
create_roi()
create_wm_mask()
crop_and_move_datasets()
extract()
interfaces.dcm2nii
Dcm2nii
interfaces.dcmstack
CopyMeta
DcmStack
GroupAndStack
LookupMeta
MergeNifti
NiftiGeneratorBase
SplitNifti
make_key_func()
sanitize_path_comp()
interfaces.diffusion_toolkit.dti
DTIRecon
DTITracker
interfaces.diffusion_toolkit.odf
HARDIMat
ODFRecon
ODFTracker
interfaces.diffusion_toolkit.postproc
SplineFilter
interfaces.dipy.tensors
TensorMode
interfaces.dipy.tracks
TrackDensityMap
interfaces.dynamic_slicer
SlicerCommandLine
interfaces.freesurfer.model
Binarize
Concatenate
GLMFit
Label2Vol
MRISPreproc
MS_LDA
OneSampleTTest
SegStats
interfaces.freesurfer.preprocess
ApplyVolTransform
BBRegister
DICOMConvert
FitMSParams
MRIConvert
ParseDICOMDir
ReconAll
Resample
RobustRegister
Smooth
SynthesizeFLASH
UnpackSDICOMDir
interfaces.freesurfer.utils
ApplyMask
MRIMarchingCubes
MRITessellate
MRIsConvert
MakeAverageSubject
SampleToSurface
SmoothTessellation
SurfaceSmooth
SurfaceSnapshots
SurfaceTransform
interfaces.fsl.dti
BEDPOSTX
DTIFit
DistanceMap
EddyCorrect
FindTheBiggest
MakeDyadicVectors
ProbTrackX
ProjThresh
TractSkeleton
VecReg
XFibres
interfaces.fsl.maths
ApplyMask
BinaryMaths
ChangeDataType
DilateImage
ErodeImage
IsotropicSmooth
MathsCommand
MaxImage
MeanImage
MultiImageMaths
SpatialFilter
TemporalFilter
Threshold
UnaryMaths
interfaces.fsl.model
Cluster
ContrastMgr
FEAT
FEATModel
FEATRegister
FILMGLS
FLAMEO
GLM
L2Model
Level1Design
MELODIC
MultipleRegressDesign
Randomise
SMM
SmoothEstimate
interfaces.fsl.preprocess
ApplyWarp
ApplyXfm
BET
FAST
FIRST
FLIRT
FNIRT
FUGUE
MCFLIRT
PRELUDE
SUSAN
SliceTimer
interfaces.fsl.utils
AvScale
Complex
ConvertXFM
EPIDeWarp
ExtractROI
FilterRegressor
ImageMaths
ImageMeants
ImageStats
InvWarp
Merge
Overlay
PlotMotionParams
PlotTimeSeries
PowerSpectrum
Reorient2Std
SigLoss
Slicer
Smooth
Split
SwapDimensions
interfaces.io
DataFinder
DataGrabber
DataSink
FreeSurferSource
IOBase
MySQLSink
SQLiteSink
XNATSink
XNATSource
add_traits()
copytree()
push_file()
quote_id()
unquote_id()
interfaces.meshfix
MeshFix
interfaces.mne.base
WatershedBEM
interfaces.mrtrix.convert
MRTrix2TrackVis
read_mrtrix_header()
read_mrtrix_streamlines()
read_mrtrix_tracks()
transform_to_affine()
interfaces.mrtrix.preprocess
DWI2Tensor
Erode
GenerateWhiteMatterMask
MRConvert
MRMultiply
MRTransform
MRTrixViewer
MedianFilter3D
Tensor2ApparentDiffusion
Tensor2FractionalAnisotropy
Tensor2Vector
Threshold
interfaces.mrtrix.tensors
ConstrainedSphericalDeconvolution
DWI2SphericalHarmonicsImage
EstimateResponseForSH
concat_files()
interfaces.mrtrix.tracking
DiffusionTensorStreamlineTrack
ProbabilisticSphericallyDeconvolutedStreamlineTrack
SphericallyDeconvolutedStreamlineTrack
StreamlineTrack
Tracks2Prob
interfaces.nipy.model
EstimateContrast
FitGLM
interfaces.nipy.preprocess
ComputeMask
FmriRealign4d
Trim
interfaces.nipy.utils
Similarity
interfaces.nitime.analysis
CoherenceAnalyzer
interfaces.slicer.base
SlicerCommandLine
interfaces.slicer.converters
DicomToNrrdConverter
OrientScalarVolume
interfaces.slicer.diffusion.diffusion
DTIexport
DTIimport
DWIJointRicianLMMSEFilter
DWIRicianLMMSEFilter
DWIToDTIEstimation
DiffusionTensorScalarMeasurements
DiffusionWeightedVolumeMasking
ResampleDTIVolume
TractographyLabelMapSeeding
interfaces.slicer.filtering.arithmetic
AddScalarVolumes
CastScalarVolume
MaskScalarVolume
MultiplyScalarVolumes
SubtractScalarVolumes
interfaces.slicer.filtering.checkerboardfilter
CheckerBoardFilter
interfaces.slicer.filtering.denoising
CurvatureAnisotropicDiffusion
GaussianBlurImageFilter
GradientAnisotropicDiffusion
MedianImageFilter
interfaces.slicer.filtering.extractskeleton
ExtractSkeleton
interfaces.slicer.filtering.histogrammatching
HistogramMatching
interfaces.slicer.filtering.imagelabelcombine
ImageLabelCombine
interfaces.slicer.filtering.morphology
GrayscaleFillHoleImageFilter
GrayscaleGrindPeakImageFilter
interfaces.slicer.filtering.n4itkbiasfieldcorrection
N4ITKBiasFieldCorrection
interfaces.slicer.filtering.resamplescalarvectordwivolume
ResampleScalarVectorDWIVolume
interfaces.slicer.filtering.thresholdscalarvolume
ThresholdScalarVolume
interfaces.slicer.filtering.votingbinaryholefillingimagefilter
VotingBinaryHoleFillingImageFilter
interfaces.slicer.legacy.converters
BSplineToDeformationField
interfaces.slicer.legacy.diffusion.denoising
DWIUnbiasedNonLocalMeansFilter
interfaces.slicer.legacy.filtering
OtsuThresholdImageFilter
ResampleScalarVolume
interfaces.slicer.legacy.registration
AffineRegistration
BSplineDeformableRegistration
ExpertAutomatedRegistration
LinearRegistration
MultiResolutionAffineRegistration
RigidRegistration
interfaces.slicer.legacy.segmentation
OtsuThresholdSegmentation
interfaces.slicer.quantification.changequantification
IntensityDifferenceMetric
interfaces.slicer.quantification.petstandarduptakevaluecomputation
PETStandardUptakeValueComputation
interfaces.slicer.registration.brainsfit
BRAINSFit
interfaces.slicer.registration.brainsresample
BRAINSResample
interfaces.slicer.registration.specialized
ACPCTransform
BRAINSDemonWarp
FiducialRegistration
VBRAINSDemonWarp
interfaces.slicer.segmentation.simpleregiongrowingsegmentation
SimpleRegionGrowingSegmentation
interfaces.slicer.segmentation.specialized
BRAINSROIAuto
EMSegmentCommandLine
RobustStatisticsSegmenter
interfaces.slicer.surface
GrayscaleModelMaker
LabelMapSmoothing
MergeModels
ModelMaker
ModelToLabelMap
ProbeVolumeWithModel
interfaces.slicer.utilities
EMSegmentTransformToNewFormat
interfaces.spm.model
EstimateContrast
EstimateModel
FactorialDesign
Level1Design
MultipleRegressionDesign
OneSampleTTestDesign
PairedTTestDesign
Threshold
ThresholdStatistics
TwoSampleTTestDesign
interfaces.spm.preprocess
ApplyDeformations
Coregister
CreateWarped
DARTEL
DARTELNorm2MNI
NewSegment
Normalize
Realign
Segment
SliceTiming
Smooth
VBMSegment
interfaces.spm.utils
Analyze2nii
ApplyInverseDeformation
ApplyTransform
CalcCoregAffine
Reslice
interfaces.utility
AssertEqual
Function
IdentityInterface
Merge
Rename
Select
Split
pkg_info
get_pkg_info()
pkg_commit_hash()
workflows.dmri.camino.connectivity_mapping
create_connectivity_pipeline()
workflows.dmri.camino.diffusion
create_camino_dti_pipeline()
workflows.dmri.camino.group_connectivity
create_group_connectivity_pipeline()
workflows.dmri.connectivity.group_connectivity
concatcsv()
create_average_networks_by_group_workflow()
create_merge_group_network_results_workflow()
create_merge_group_networks_workflow()
create_merge_network_results_by_group_workflow()
create_merge_networks_by_group_workflow()
pullnodeIDs()
workflows.dmri.connectivity.nx
create_cmats_to_csv_pipeline()
create_networkx_pipeline()
add_global_to_filename()
add_nodal_to_filename()
workflows.dmri.fsl.dti
create_bedpostx_pipeline()
create_dmri_preprocessing()
create_eddy_correct_pipeline()
create_motion_correct_pipeline()
create_susceptibility_correct_pipeline()
transpose()
workflows.dmri.fsl.tbss
create_tbss_1_preproc()
create_tbss_2_reg()
create_tbss_3_postreg()
create_tbss_4_prestats()
create_tbss_all()
create_tbss_non_FA()
tbss1_op_string()
tbss4_op_string()
workflows.dmri.mrtrix.connectivity_mapping
create_connectivity_pipeline()
workflows.dmri.mrtrix.diffusion
create_mrtrix_dti_pipeline()
workflows.dmri.mrtrix.group_connectivity
create_group_connectivity_pipeline()
workflows.fmri.fsl.estimate
create_fixed_effects_flow()
create_modelfit_workflow()
create_overlay_workflow()
workflows.fmri.fsl.preprocess
create_featreg_preproc()
create_fsl_fs_preproc()
create_parallelfeat_preproc()
create_susan_smooth()
chooseindex()
getbtthresh()
getmeanscale()
getthreshop()
getusans()
pickfirst()
pickmiddle()
pickvol()
workflows.fmri.spm.preprocess
create_DARTEL_template()
create_spm_preproc()
create_vbm_preproc()
workflows.misc.utils
get_affine()
get_data_dims()
get_vox_dims()
id_list_from_lookup_table()
region_list_from_volume()
select_aparc()
select_aparc_annot()
workflows.rsfmri.fsl.resting
create_realign_flow()
create_resting_preproc()
extract_noise_components()
select_volume()
workflows.smri.ants.ANTSBuildTemplate
ANTSTemplateBuildSingleIterationWF()
FlattenTransformAndImagesList()
GetFirstListElement()
MakeListsOfTransformLists()
MakeTransformListWithGradientWarps()
RenestDeformedPassiveImages()
workflows.smri.ants.antsRegistrationBuildTemplate
antsRegistrationTemplateBuildSingleIterationWF()
FlattenTransformAndImagesList()
GetFirstListElement()
GetMovingImages()
GetPassiveImages()
MakeTransformListWithGradientWarps()
RenestDeformedPassiveImages()
SplitAffineAndWarpComponents()
makeListOfOneElement()
workflows.smri.freesurfer.bem
create_bem_flow()
workflows.smri.freesurfer.utils
create_get_stats_flow()
create_getmask_flow()
create_tessellation_flow()
get_aparc_aseg()