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altantsbrainextraction

Brain extraction loosely based on antsBrainExtraction.sh, but with different defaults and options

amico

Accelerated Microstructure Imaging via Convex Optimization (AMICO) from diffusion MRI data

amico-noddi

Containerized wrapper to fit NODDI with AMICO

ants

Advanced Normalization Tools (ANTs)

antsct-aging-fw

antsdtorientationtests

Data and code to test DT warping and reorientation in ANTs

antsinstallexample

Simple bash script that downloads and installs ANTs in a unix environment

antsjacobianexample

Example Jacobian computation from a simple test case using ANTs CreateJacobianDeterminantImage

antspseudogeodesicjointfusion

Shortcut to do joint fusion by using an intermediate template to warp atlases to the target image

antspy

Advanced Normalization Tools in Python

antspynet

Pre-trained models and utilities for deep learning on medical images in Python

antspyregistrationstability

Experiments to examine the reproducibility/stability of ants and antspy registration

antsr

Advanced Normalization Tools in R

antsregreproduce

Reproducibility experiments for antsRegistration

antsrestrictdeformationexample

Registration with restricted deformation

antsrnetsingularity

Singularity recipe for building ANTsRNet

antsrsingularity

ANTsR Singularity build for Ubuntu 16.04 Xenial

antsvsgreedyjlf

Comparing performance of ANTs and Greedy tools for JLF in the MICCAI 2012 challenge data

antsxbratsreg22singularity

Containerized implementation of

antsxcontainers

Container building scripts for ANTsX tools

antsxnetcorticalthickness

Cortical thickness pipelines using ANTsXNet

ashs

Automatic Segmentation of Hippocampal Subfields

ashsthk

c3d

Convert3D tool

cubids

Curation of BIDS (CuBIDS): A sanity-preserving software package for processing BIDS datasets.

dicom-mr-classifier

diffusiongradientutils

Misc utilities for handling diffusion imaging gradient sampling schemes

dstripe

This repository contains code and model weights for the method described in the paper "dStripe: slice artefact correction in diffusion MRI via constrained neural network" https://doi.org/10.1016/j.media.2021.102255

fdtwrap

Scripts to make calls to topup / eddy and take care of some common pre-requisites

fmriants

Minimal fMRI pre-processing with ANTS