Defined in file : brainvisa/types/builtin.py
01. DICE calculation (Batch mode) : FFD vs median subsample of volume
02. DICE calculation (Batch mode) : transformations evaluation
03. DICE calculation (batch mode) : DICE vs subsample of segmentation
04. DICE calculation (Batch mode) : FFD by different knot grids
05. DICE calculation (Batch mode) : FFD vs different combinations of color components on photo
06. DICE calculation (Batch mode) : FFD with different knot grid positions
3D hierarchical analysis
3DFFDTransformationApplication
3DFFDTransformationEstimation
[ANTs] Apply Transform
[ANTs] Registration (Linear + Elastic Simplified)
[Atlas] Hierarchy Tools
[Binary Volume] Extract Bounding Box (BinaryBoundingBox)
[Binary Volume] Extract Bounding Box from Binary (BoundingBoxCalculation)
[Proba Volume] Convert to colored atlas for visualization
[Reference Segmentation] Convert and merge
[Volume of Labels] Compute Clique Statistics
[Volume] - Split parallel
[Volume] Block Matching
[Volume] Connected Component
[Volume] Connected Components
[Volume] Convert
[Volume] Flip
[Volume] Flip
[Volume] Gray level to time series
[Volume] Inter Slice Normalize
[Volume] Linear Combination
[Volume] Linear Combination
[Volume] Mask
[Volume] Mask
[Volume] Morphological Closing
[Volume] Morphological Opening
[Volume] Replace Level
[Volume] Replace Level
[Volume] Resample
[Volume] Segment brain from photo (mac)
[Volume] Smoothing
[Volume] Smoothing
[Volume] SubSampling
[Volume] SubSampling
[Volume] SubVolume
[Volume] Threshold
[Volume] Threshold
Adaptive bandwidth generation
Adaptive gaussian filtering
Adaptive heatmap generation
Add gaussian noise in image background
Ana Brain Mask from T1 MRI
Apply FFD on atlas label
Apply mask
ApplyFastMarching
ApplyPreprocessedTransformations
Atlas label extraction
AxialInterleavedVolumeExtraction
AxialSliceDeletion
AxialSliceListReplacement
AxialSliceReplacement
AxialSlicesPermutation
Bias correction from B1 map
Block matching transformation estimation
Border generation
Bruker MRI : sequence preprocess
Calcul DICE's score on masks/labels volume
ClearMap formats conversion
ClearMap resampling
Cluster detection
Color combination generator
Color segmentation: class selection
Color segmentation: feature based classification
Color segmentation: model visualization
Compute T statistics and p-values
Compute voxel-wise between-group difference
Compute voxel-wise descriptive statsitics
Connected component extraction
Correction Brain Mask from T1 MRI
CorrectShiftStack
Create an Average Volume from a 4D-Volume
Create an Average Volume from Different Volumes
Create points ROI
Create Sulcus Label Volume
Crop volume
Delta permutation null-hypothesis
Delta permutation voxel-wise inference
DICE calculation : DICE on label vs subsample of segmentation
DICE calculation : FFD on label with different knot grid
DICE calculation : FFD on label with different knot grid positions
DICE calculation : FFD vs different combinations of color components on photo
DICE calculation : transformations evaluation
DICE calculation: FFD vs median subsample of volume
Digital atlas prepare pipeline
DigitalAtlasRegistrationOnVolume
DigitalAtlasRegistrationOnVolumeParallel
Draw bounding boxes
Elastix Registration
Elastix transformation estimation
Extract components using the morphological reconstruction
Extract connected components in order
Extract subvolume
FastMarching_AP_Segmentation 3D
Feature Extraction
Field of view processing
FlipApplication
FlipApplicationOnASlice
FOV enlarge
Free form deformation registration pipeline
Free form deformation transformation application
Free form deformation transformation estimation
Fusion Linear Contrasts
Gaussian smoothing
GenerateBorder
GenerateMask
Gradient generation
Grey level replacement
GreyLevelConversionToActivity
Grid generation
Head Mesh
Heat map generation
Histology: 3D reconstruction pipeline
Histology: multiple 3D reconstruction pipeline
IndividualizingAndStackingMultipleSlices
IndividualizingSlices
IntensityVolumeNormalization
InteractiveSubvolumeExtraction
Interhemispheric plane correction
Interlace multiple volumes
InterVolumesSliceCoregistration
IntraVolumePropagativeSliceRegistration
Labeled volume: calculate the bounding box for each label
Leave-one-out RSS
Linear Combination
Linear registration pipeline
Localize Talairach Coordinate
Manual: Edit bounding box
Manual: Extract bounding boxes
Mask application
Mask generation
Mask processing
Mean volume generation
Median subsampling on volume
ml - Classify features image
ml - Features extraction using feature description file
ml - Parallel classification
ml - Parallel features extraction using feature description file
ml - PCA visualization
ml - Segmentation pipeline
Morphological operators application
Move volume between MNI - T1MRI - PET (spm12)
Move volume between MNI - T1MRI - PET (spm8)
Multiple channel volume preprocessing
Mutual information transformation estimation
NonLinearVolumeRegistration
Outline generation
Parallel permutations
PETScanAtlasAnalysis
PhotographicVolumePreprocessing
Photography: 3D reconstruction pipeline
PixelSizeCalibration
Quantification: multiple 3D hierarchical analysis pipeline
Reference registration pipeline
Registration pipeline
Resample ROI graph
Resampling volume
RGB_roi_fill
RGBIntensityNormalization
RGBVolumeCreation
ROISymetrizationAnd3DAnalysis
Series Converter
Simple ROI Editor
Single delta permutation
Single permutation
SPCN - 01 - Model estimation
SPCN - 02 - Model application
SPM : template generation pipeline
SPM : template registration pipeline
Stacking
StackingIndividualSlices
StackingPhotographs
SubvolumeStacking
Sulci Thickness and Volumes
Surfacic Sulci To Labels Volume
T-test
Threshold and Normalize
UnstackingVolumeInIndividualSlices
Varian MRI : sequence preprocess
volume - stack slices (GIS only)
volume - unstack slices (GIS only)
VolumeResizing
Volumic Average
Volumic Deviation
Volumic Sulcus SPAM
Volumic T Test
Aperio svs
BMP image
BrainVISA volume formats
DICOM image
Directory
ECAT i image
ECAT v image
FDF image
FreesurferMGH
FreesurferMGZ
GIF image
GIS image
Graph and data
gz compressed ECAT i image
gz compressed ECAT v image
gz compressed GIS image
gz compressed MINC image
gz compressed NIFTI-1 image
gz compressed SPM image
gz compressed VIDA image
Hamamatsu ndpi
Hamamatsu vms
Hamamatsu vmu
JPEG image
Leica scn
MINC image
NIFTI-1 image
PBM image
PGM image
PNG image
PPM image
Sakura svslide
Series of BMP image
Series of GIF image
Series of JPEG image
Series of MNG image
Series of PBM image
Series of PGM image
Series of PNG image
Series of PPM image
Series of TIFF image
Series of TIFF(.tif) image
Series of XBM image
Series of XPM image
SPM image
TIFF image
TIFF(.tif) image
Ventana bif
VIDA image
XBM image
XPM image
Z compressed ECAT i image
Z compressed ECAT v image
Z compressed GIS image
Z compressed SPM image
Z compressed VIDA image
Zeiss czi
side
protocol , subject , filename_variable , acquisition , center , analysis , template , side , spm_normalized , marker , category , tissue_class , transformation , modulation , warping_method , name_serie , direction , contrast
subject , side , space , atlas
Size , referential , skull_stripped
study , center , subject , specie , photo_number , serie , Study , acquisition , analysis , graph_version , sulci_recognition_session , side , manually_labelled , automatically_labelled , hoffman_id , processing , tracer , rescan , acquisition_date , time_point , time_duration , mapped , contrast , space , modality , Template , origin_subject , labelStat , segmentation_method , from , PVC_method , factoriel_design , first_group , second_group , fwhm , contrast_type , contrast_index , basename , pet_intersection , ROIReference , nuisance_covariate_list , interest_covariate_list , factorial_design , group_name , template , reconstruction , atlas , normalization , best , acquisition_sequence , region , tissue_class , warping_method , modulation , transformation , scan_session , marker , extracted_level , slice_number , baseline_acquisition , direction , VOIReference , VOIStatistic , scan_number , explicit_mask
atlas , Size , referential , skull_stripped , filename_variable , resolution , VOIReference , VOIStatistic , explicit_mask
protocol , subject , acquisition , analysis , from , center , template , side , normalization , graph_version , sulci_recognition_session , manually_labelled , automatically_labelled , best , tissue_class , transformation , modulation , warping_method , direction , contrast