ANTs

Advanced Normalization Tools

View the Project on GitHub stnava/ANTs

Advanced Normalization Tools

Questions: Discussion Site or new ANTsDoc or try this version

ANTsTalk - subject to change at any moment

ANTsRegistrationTalk - subject to change at any moment

Email: antsr.me at gmail dot com

Install ANTs via pre-built: Packages

Build ANTs from: Source-Code (recommended)

ANTs Dashboard maintained by Hans J. Johnson

ANTs extracts information from complex datasets that include imaging (Word Cloud). Paired with ANTsR (answer), ANTs is useful for managing, interpreting and visualizing multidimensional data. ANTs is popularly considered a state-of-the-art medical image registration and segmentation toolkit. ANTsR is an emerging tool supporting standardized multimodality image analysis. ANTs depends on the Insight ToolKit (ITK), a widely used medical image processing library to which ANTs developers contribute.

Authors

Brian B. Avants - UPENN

Role: Creator, Algorithm Design, Implementation, more

Nicholas J. Tustison - UVA

Role: Compeller, Algorithm Design, Implementation Guru, more

Hans J. Johnson - UIowa

Role: Large-Scale Application, Testing, Software design

Team Members

Core: Gang Song (Originator), Jeffrey T. Duda (DTI), Ben M. Kandel (Perfusion, multivariate analysis), Kent Williams (software engineer, UIowa)

Image Registration

Diffeomorphisms: SyN, Independent Evaluation: Klein, Murphy, Template Construction (2004)(2010), Similarity Metrics, Multivariate registration, Multiple modality analysis and statistical bias

Image Segmentation

Atropos Multivar-EM Segmentation (link), Multi-atlas methods (link), Bias Correction (link), DiReCT cortical thickness (link), DiReCT in chimpanzees

Multivariate Analysis Eigenanatomy (1) (2)

Prior-Based Eigenanatomy (in prep), Sparse CCA (1), (2), Sparse Regression (link)

ImageMath Useful!

morphology, GetLargestComponent, CCA, FillHoles ... much more!

Application Domains

Frontotemporal degeneration PENN FTD center

Multimodality Neuroimaging

Lung Imaging

Background & Theory

ANTs has won several unbiased & international competitions

Learning about ANTs

ANTs and ITK paper

Pre-built ANTs templates with spatial priors download

The ANTs Cortical Thickness Pipeline example

"Cooking" tissue priors for templates example (after you build your template)

Basic Brain Mapping example

Large deformation example

Template construction example

Automobile example

Asymmetry example

Point-set mapping

Feature matching example ... not up to date ...

Chimpanzee cortical thickness example

Global optimization example

Morphing example

fMRI or Motion Correction example

fMRI reproducibility example

fMRI prediction example ... WIP ...

Cardiac example

Brain extraction example

N4 bias correction <-> segmentation example

Cortical thickness example

MALF labeling example example

Bibliography bibtex of ANTs-related papers

ANTs google scholar page

Presentations: e.g. a Prezi about ANTs (WIP)

Reproducible science as a teaching tool: e.g. compilable ANTs tutorial (WIP)

Other examples slideshow

Landmark-based mapping for e.g. hippocampus discussed here

Brief ANTs segmentation video

References

Google Scholar

Pubmed

ANTs was supported by: R01-EB006266-01

githalytics.com alpha