R. Duits

M. H. J. Janssen, A. J. E. M. Janssen, E. J. Bekkers et al.

The enhancement and detection of elongated structures in noisy image data is relevant for many biomedical imaging applications. To handle complex crossing structures in 2D images, 2D orientation scores $U: \mathbb{R} ^ 2\times S ^ 1 \rightarrow \mathbb{C}$ were introduced, which already showed their use in a variety of applications. Here we extend this work to 3D orientation scores $U: \mathbb{R} ^ 3 \times S ^ 2\rightarrow \mathbb{C}$. First, we construct the orientation score from a given dataset, which is achieved by an invertible coherent state type of transform. For this transformation we introduce 3D versions of the 2D cake-wavelets, which are complex wavelets that can simultaneously detect oriented structures and oriented edges. Here we introduce two types of cake-wavelets, the first uses a discrete Fourier transform, the second is designed in the 3D generalized Zernike basis, allowing us to calculate analytical expressions for the spatial filters. Finally, we show two applications of the orientation score transformation. In the first application we propose an extension of crossing-preserving coherence enhancing diffusion via our invertible orientation scores of 3D images which we apply to real medical image data. In the second one we develop a new tubularity measure using 3D orientation scores and apply the tubularity measure to both artificial and real medical data.

J. M. Portegies, R. H. J. Fick, G. R. Sanguinetti et al.

We propose two strategies to improve the quality of tractography results computed from diffusion weighted magnetic resonance imaging (DW-MRI) data. Both methods are based on the same PDE framework, defined in the coupled space of positions and orientations, associated with a stochastic process describing the enhancement of elongated structures while preserving crossing structures. In the first method we use the enhancement PDE for contextual regularization of a fiber orientation distribution (FOD) that is obtained on individual voxels from high angular resolution diffusion imaging (HARDI) data via constrained spherical deconvolution (CSD). Thereby we improve the FOD as input for subsequent tractography. Secondly, we introduce the fiber to bundle coherence (FBC), a measure for quantification of fiber alignment. The FBC is computed from a tractography result using the same PDE framework and provides a criterion for removing the spurious fibers. We validate the proposed combination of CSD and enhancement on phantom data and on human data, acquired with different scanning protocols. On the phantom data we find that PDE enhancements improve both local metrics and global metrics of tractography results, compared to CSD without enhancements. On the human data we show that the enhancements allow for a better reconstruction of crossing fiber bundles and they reduce the variability of the tractography output with respect to the acquisition parameters. Finally, we show that both the enhancement of the FODs and the use of the FBC measure on the tractography improve the stability with respect to different stochastic realizations of probabilistic tractography. This is shown in a clinical application: the reconstruction of the optic radiation for epilepsy surgery planning.