# Advanced Normalization Tools

Questions: Discussion Site
Email: antsr.me at gmail dot com
Install ANTs via pre-built: Packages
Build ANTs from: Source-Code (recommended)

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

  Team: Gang Song (Originator), Jeffrey T. Duda (DTI), Hans J. Johnson (Large-Scale Application, Testing)

Methods References

  ## 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

  ## Neuroimaging Multimodality

  - Structural MRI
  - Functional MRI
  - Network Analysis

  ## Lung imaging Translational

  - Structure
  - Perfusion MRI
  - Branching

Background & Theory
  - The SyN and N4 bias correction papers and other relevant references in Pubmed
  - Visualization: e.g. a gource of ANTs development
  - DiReCT cortical thickness papers
  - A folder of relevant docs: segmentation, registration, usage(old), for clinical apps
  - ANTs redesigned for generality, automation, multi-core computation with ITKv4
  - Dev'd ITKv4 with Kitware, GE, Natl. Lib of Medicine & Academia
Acclaim for Robustness & Other News

  ## ANTs has won several competitions Unbiased & international

  - New antsRegistration bash example
  - New Eigenanatomy for multivariate neuroimage analysis via PCA & CCA
  - ANTs finished in 1st rank in Klein 2009 intl. brain mapping competition
  - ANTs finished 1st overall in EMPIRE10 intl. lung mapping competition
  - ANTs is the standard registration for MICCAI-2013 segmentation competitions
  - Conducting ANTs-based R tutorial @ MICCAI-2013
  - ITK-focused Frontiers in Neuroinformatics research topic here
Learning about ANTs
  - 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