Resources

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General Image Processing

GVF Software

• 2D GVF code for Matlab is available by following this link.
• 2D Multigrid GVF code in C is available by following this link.
• 3D GVF example Java code is available here. This 3D version is built around JIST.

JIST

• The Java Image Science Toolkit (JIST) has a project page and downloads.

MGDM

• Source code and demonstrations for the Multiple-object Geometric Deformable Model (MGDM) can be found on the MGDM project page hosted by NITRC.
• A movie demo of the decomposition and evolution of MGDM.

Brain

Validation Data for Cortical Reconstruction Algorithms

• The cortical validation resource for evaluation of cortical reconstruction algorithms on both normal subjects and subjects with White Matter lesions.

Cerebellar Lobule Segmentation using Graph Cuts

• Cerebellar Lobule Segmentation Code can be used to parcellate the cerebellum into lobules given a T1w MRI image.

PET Attentuation Correction

• The PET attentuation correction method described in S. Roy, W.-T. Wang, A. Carass, J.L. Prince, J.A. Butman, and D.L. Pham, "PET Attenuation Correction Using Synthetic CT from Ultrashort Echo-Time MR Imaging", Jrnl. of Nuclear Medicine, 55:1-7, 2014. (doi)
• Matlab executables are available.

MIMECS

• MIMECS is described in: S. Roy, A. Carass, and J.L. Prince, "Magnetic Resonance Image Example Based Contrast Synthesis", IEEE Trans. on Medical Imaging, 32(12):2348-2363, 2013. (PDF) (doi)
• Code and sample data is available on our NITRC Project Page titled Image Synthesis.

Rician Mixture Model

• The Rician mixture model for segmenting the brain is described in: S. Roy, A. Carass, P.-L. Bazin, S.M. Resnick, and J.L. Prince, "Consistent Segmentation using a Rician Classifier", Medical Image Analysis, 16(2):524-535, 2012. (PDF) (doi) (PubMed)
• Matlab executables are available.

Progression Score Model

• The Progression Score Model Toolkit can be obtained from the NITRC project page.

Retinal

AURA Tools

• The AURA Tools software package allows for the automated processing and segmentation of Optical Coherence Tomography images of the macula cube. It is available from the NITRC website.

• Version 1.2 includes the software originally presented in: A. Lang, A. Carass, M. Hauser, E.S. Sotirchos, P.A. Calabresi, H.S. Ying, and J.L. Prince, "Retinal layer segmentation of macular OCT images using boundary classification", Biomedical Optics Express, 4(7):1133-1152, 2013. (PDF) (doi) (PMCID 3704094)

Cardiac

HARP

• For MATLAB demonstration software send an email to and expect a reply within five business days. We also have a collection of frequently asked questions about our HARP software.