Iman Aganj, PhD


Assistant Professor of Radiology, Harvard Medical School

Assistant in Neuroscience, Martinos Center for Biomedical Imaging, Massachusetts General Hospital

Research Affiliate, Computer Science & Artificial Intelligence Lab, Massachusetts Institute of Technology

Segmentation-Based Multimodal Image Registration

I. Aganj and B. Fischl, “Multimodal image registration through simultaneous segmentation,” IEEE Signal Processing Letters, vol. 24, no. 11, pp. 1661–1665, 2017.


The author’s Matlab code; requires SPM12.

Mid-Space-Independent (MSI) Deformable Image Registration

I. Aganj, J. E. Iglesias, M. Reuter, M. R. Sabuncu, and B. Fischl, “Mid-space-independent deformable image registration,” NeuroImage, vol. 152, pp. 158–170, 2017.


The author’s Matlab implementation (including binaries); see the Example script.


Hough-Transform Tractography

I. Aganj, C. Lenglet, N. Jahanshad, E. Yacoub, N. Harel, P. Thompson, and G. Sapiro, “A Hough transform global probabilistic approach to multiple-subject diffusion MRI tractography,” Medical Image Analysis, vol. 15, no. 4, pp. 414–425, 2011.


The author’s Matlab implementation (including binaries); see the EXAMPLE routine.

Codes to synthesize the phantom used in the paper can be found here.


Orientation Distribution Function in Constant Solid Angle (CSA-ODF)

I. Aganj, C. Lenglet, G. Sapiro, E. Yacoub, K. Ugurbil, and N. Harel, “Reconstruction of the orientation distribution function in single and multiple shell q-ball imaging within constant solid angle,” Magnetic Resonance in Medicine, vol. 64, no. 2, pp. 554–566, 2010.


The author’s Matlab implementation (including binaries); see the EXAMPLE routine.


FSL’s qboot command, implemented by Sotiropoulos et al (OHBM, 2011).


Diffusion Imaging In Python (Dipy)’s CsaOdfModel command, implemented by Garyfallidis et al (Front Neuroinform, 2014).


MITK Diffusion Imaging’s Q-Ball Reconstruction module, implemented by Fritzsche et al (ISMRM, 2011).

ANIMA Anima’s animaODFEstimator C function, developed at VisAGeS, Inria.
pHARDI Parallel High Angular Resolution Diffusion Imaging (pHARDI)’s qbi-csa reconstruction method, implemented by Garcia-Blas et al (ICA3PP, 2016).


R-Package dti’s dwiQball command, implemented by Polzehl and Tabelow (J Stat Softw, 2011). See also the R-Package gdimap.


HARDI Tools test_DOT_R2_vs_CSA_QBI_example Matlab routine, implemented by Canales-Rodríguez et al.


ODF Maxima Extraction

I. Aganj, C. Lenglet, and G. Sapiro, “ODF maxima extraction in spherical harmonic representation via analytical search space reduction,” in Proceedings of the Thirteenth International Conference on Medical Image Computing and Computer Assisted Intervention, pp. 84–91, Beijing, China, 2010.


MITK Diffusion Imaging’s Peak Extraction module, implemented by Fritzsche et al (ISMRM, 2011).


Tissue Thickness Measurement via Minimum Line Integrals

I. Aganj, G. Sapiro, N. Parikshak, S. K. Madsen, and P. Thompson, “Measurement of cortical thickness from MRI by minimum line integrals on soft-classified tissue,” Human Brain Mapping, vol. 30, no. 10, pp. 3188–3199, 2009.


The author’s Matlab / C implementation; see the EXAMPLE routine.


Wavelet Image Fusion

I. Aganj, C. Lenglet, E. Yacoub, G. Sapiro, and N. Harel, “A 3D wavelet fusion approach for the reconstruction of isotropic-resolution MR images from orthogonal anisotropic-resolution scans,” Magnetic Resonance in Medicine, vol. 67, no. 4, pp. 1167–1172, 2012.


The author’s Matlab implementation; see the fuseVolW_multi command.