Defined in file : brainvisa/types/builtin.py
02 Launch Freesurfer full pipeline recon-all
03. DICE calculation (batch mode) : DICE vs subsample of segmentation
09 Converting labels to readable ascii format.
3D hierarchical analysis
3D-HAPi: 3D Histology Analysis Pipeline
[ANTs] Apply Transform
[ANTs] Registration (Linear + Elastic Simplified)
[Binary Volume] Extract Bounding Box (BinaryBoundingBox)
[Binary Volume] Extract Bounding Box from Binary (BoundingBoxCalculation)
[Parcellation] Generate segmentation scores
[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
Aggregate optimization cartography
Astrocyte: Threshold Segmentation
Automatic bounding boxes detection
Average Subject Longitudinal Pipeline
AxialSliceListReplacement
Binary image: bounding box calculation
Block matching transformation estimation
Border generation
Bounding box transformation application
Brain Parcellation (EM)
Calibration
CAT12 - Segment - generic
CellPoseMaskConversion
Check raw data pipeline (PET)
Cingular Pole Texture From Freesurfer Label Texture
Clustering scores
color normalization GAN
Color segmentation: class selection
Color segmentation: feature based classification
Compute GTM PVC based methods
Connected component extraction
Constellation Individual Clusters from atlas pipeline - FSL connectome
Constellation Individual Pipeline - FSL connectome
convert Dicoms to Nifti images
Converting freesurfer labels to GIFTI textures.
Create database
CZI only: Automatic extract meta-data bounding boxes
DaTscan analysis pipeline
DaTscan Import rawdata pipeline
Dendrogram
DICE calculation : DICE on label vs subsample of segmentation
Dices table (and graph) generator
Dicom to Nifti Converter Using Aims
Dicom to Nifti Converter Using MRICRON
DigitalAtlasRegistrationOnVolumeParallel
DISCO HBP templates deformation fields graph installation
disco_subject_to_icbm
Download Allen Brain Atlas
Draw bounding boxes
Elastix Registration
Elastix transformation estimation
Extract Nifti Files from Brainvisa database
Extract sub list of images
Extract subvolume
Feature Extraction
Field of view processing
Free form deformation registration pipeline
Free form deformation transformation estimation
FSL Connectome
Generate optimization cartography workflow
Generate overlap cartography
Generate thumbnails
Global graph property
GraphMergeLabels
Group subjects by type
Heat map generation
Histological scan spatial reorganization
Histological slices extraction
Histology : 3d reconstruction pipeline
Histology: 3D reconstruction pipeline
Histology: multiple 3D reconstruction pipeline
Import DaTscan
Import DatScan Multiple
Import Dicom T1 MRI
Import Dicoms (new version)
Import Dicoms of One Subject
Import Jaszczak pipeline
Import MCRIBS dHCP preterm subject into a brainvisa database
Import new assessment (dicom)
Import phantom recons DatScan
Import Reference dicom
Individual Longitudinal Pipeline
Individualize labeled volume
InterVolumesSliceCoregistration
Jaszczak - FWHM Determination based on RC
Linear registration pipeline
Manual: Edit bounding box
Manual: Extract bounding boxes
Mask application
Mask generation
Mask processing
mean pets
Merge bounding box files
Merge Statistics
ml - Parallel multiple images features extraction
ml - Weighted Random Forest image-level cross-validation pipeline
Morphometry statistics
Multiple registration pipeline
Mutual information transformation estimation
Parallel delta permutations
Parallel permutations
Parallel propagative slice registration
Parallel slice coregistration
Parallel transformation application
patch assembling
patch generation
Photo : 3d reconstruction pipeline
Photography: 3D reconstruction pipeline
Quality check pipeline (SPECT)
Quantification: multiple 3D hierarchical analysis pipeline
Realign PET (spm 12)
Realign PET (using SPM)
Reference registration pipeline
Registration pipeline
Registration pipeline v2
Remove tag in dicoms
RenameImageSeries
Replace char in paths
Resampling
Run AssemblyNet - generic
Select folds & relations with good recognition percentage
Smoothing filter
SPAM models installation
SPCN - 01 - Model estimation
Split ROI
spm12 - Deformations : apply one deformation - generic
spm12 - Deformations : composition - generic
spm12 - Model Review - generic
spm12 - One sample T-test - generic
spm12 - Paired T-test - generic
spm12 - Results report
spm12 - Two sample T-test - generic
spm8 - Deformations : apply deformation field- generic
Stacking
Study definition manager
Sub sampling
Subcortical From Freesurfer To MarsAtlas Parcellation
subject versus group (full pipeline in SPM12)
Sulci graph morphometry inter subject
Sulci SPAM
T-test
training GAN
Transformation application
volume - unstack slices (GIS only)
Write the connectome of a given parcellation
zip and import Dicoms
Directory
phantom , center , acquisition , reconstruction
protocol , subject , category , acquisition , analysis , template
protocol , subject , acquisition , analysis , graph_version , sulci_recognition_session , side , template
Study , Template , factorial_design , first_group , second_group , analysis , group_name , rescan , time_duration , time_point , acquisition_date , center , subject , acquisition , tracer , graph_version , sulci_recognition_session , side , manually_labelled , automatically_labelled , processing , template
modality , manufacturer , device_model , center_device_id
rescan , time_duration , time_point , acquisition_date , subject , session , acquisition , analysis , graph_version , sulci_recognition_session , side
rescan , time_duration , time_point , acquisition_date , subject , session , bids , analysis , graph_version , sulci_recognition_session , side