5,992 research outputs found
Spectral filtering for the reduction of the Gibbs phenomenon of polynomial approximation methods on Lissajous curves with applications in MPI
Polynomial interpolation and approximation methods on sampling points along Lissajous curves using Chebyshev series is an effective way for a fast image reconstruction in Magnetic Particle Imaging. Due to the nature of spectral methods, a Gibbs phenomenon occurs in the reconstructed image if the underlying function has discontinuities. A possible solution for this problem are spectral filtering methods acting on the coefficients of the approximating polynomial. In this work, after a description of the Gibbs phenomenon and classical filtering techniques in one and several dimensions, we present an adaptive spectral filtering process for the resolution of this phenomenon and for an improved approximation of the underlying function or image. In this adaptive filtering technique, the spectral filter depends on the distance of a spatial point to the nearest discontinuity. We show the effectiveness of this filtering approach in theory, in numerical simulations as well as in the application in Magnetic Particle Imaging
Computerized Analysis of Magnetic Resonance Images to Study Cerebral Anatomy in Developing Neonates
The study of cerebral anatomy in developing neonates is of great importance for
the understanding of brain development during the early period of life. This
dissertation therefore focuses on three challenges in the modelling of cerebral
anatomy in neonates during brain development. The methods that have been
developed all use Magnetic Resonance Images (MRI) as source data.
To facilitate study of vascular development in the neonatal period, a set of image
analysis algorithms are developed to automatically extract and model cerebral
vessel trees. The whole process consists of cerebral vessel tracking from
automatically placed seed points, vessel tree generation, and vasculature
registration and matching. These algorithms have been tested on clinical Time-of-
Flight (TOF) MR angiographic datasets.
To facilitate study of the neonatal cortex a complete cerebral cortex segmentation
and reconstruction pipeline has been developed. Segmentation of the neonatal
cortex is not effectively done by existing algorithms designed for the adult brain
because the contrast between grey and white matter is reversed. This causes pixels
containing tissue mixtures to be incorrectly labelled by conventional methods. The
neonatal cortical segmentation method that has been developed is based on a novel
expectation-maximization (EM) method with explicit correction for mislabelled
partial volume voxels. Based on the resulting cortical segmentation, an implicit
surface evolution technique is adopted for the reconstruction of the cortex in
neonates. The performance of the method is investigated by performing a detailed
landmark study.
To facilitate study of cortical development, a cortical surface registration algorithm
for aligning the cortical surface is developed. The method first inflates extracted
cortical surfaces and then performs a non-rigid surface registration using free-form
deformations (FFDs) to remove residual alignment. Validation experiments using
data labelled by an expert observer demonstrate that the method can capture local
changes and follow the growth of specific sulcus
Semi-blind Sparse Image Reconstruction with Application to MRFM
We propose a solution to the image deconvolution problem where the
convolution kernel or point spread function (PSF) is assumed to be only
partially known. Small perturbations generated from the model are exploited to
produce a few principal components explaining the PSF uncertainty in a high
dimensional space. Unlike recent developments on blind deconvolution of natural
images, we assume the image is sparse in the pixel basis, a natural sparsity
arising in magnetic resonance force microscopy (MRFM). Our approach adopts a
Bayesian Metropolis-within-Gibbs sampling framework. The performance of our
Bayesian semi-blind algorithm for sparse images is superior to previously
proposed semi-blind algorithms such as the alternating minimization (AM)
algorithm and blind algorithms developed for natural images. We illustrate our
myopic algorithm on real MRFM tobacco virus data.Comment: This work has been submitted to the IEEE Trans. Image Processing for
possible publicatio
Deep image prior for 3D magnetic particle imaging: A quantitative comparison of regularization techniques on Open MPI dataset
Magnetic particle imaging (MPI) is an imaging modality exploiting the
nonlinear magnetization behavior of (super-)paramagnetic nanoparticles to
obtain a space- and often also time-dependent concentration of a tracer
consisting of these nanoparticles. MPI has a continuously increasing number of
potential medical applications. One prerequisite for successful performance in
these applications is a proper solution to the image reconstruction problem.
More classical methods from inverse problems theory, as well as novel
approaches from the field of machine learning, have the potential to deliver
high-quality reconstructions in MPI. We investigate a novel reconstruction
approach based on a deep image prior, which builds on representing the solution
by a deep neural network. Novel approaches, as well as variational and
iterative regularization techniques, are compared quantitatively in terms of
peak signal-to-noise ratios and structural similarity indices on the publicly
available Open MPI dataset
Computer Vision Approaches to Liquid-Phase Transmission Electron Microscopy
Electron microscopy (EM) is a technique that exploits the interaction between electron and matter to produce high resolution images down to atomic level. In order to avoid undesired scattering in the electron path, EM samples are conventionally imaged in solid state under vacuum conditions. Recently, this limit has been overcome by the realization of liquid-phase electron microscopy (LP EM), a technique that enables the analysis of samples in their liquid native state. LP EM paired with a high frame rate acquisition direct detection camera allows tracking the motion of particles in liquids, as well as their temporal dynamic processes. In this research work, LP EM is adopted to image the dynamics of particles undergoing Brownian motion, exploiting their natural rotation to access all the particle views, in order to reconstruct their 3D structure via tomographic techniques. However, specific computer vision-based tools were designed around the limitations of LP EM in order to elaborate the results of the imaging process. Consequently, different deblurring and denoising approaches were adopted to improve the quality of the images. Therefore, the processed LP EM images were adopted to reconstruct the 3D model of the imaged samples. This task was performed by developing two different methods: Brownian tomography (BT) and Brownian particle analysis (BPA). The former tracks in time a single particle, capturing its dynamics evolution over time. The latter is an extension in time of the single particle analysis (SPA) technique. Conventionally it is paired to cryo-EM to reconstruct 3D density maps starting from thousands of EM images by capturing hundreds of particles of the same species frozen on a grid. On the contrary, BPA has the ability to process image sequences that may not contain thousands of particles, but instead monitors individual particle views across consecutive frames, rather than across a single frame
Digital Image Processing Applications
Digital image processing can refer to a wide variety of techniques, concepts, and applications of different types of processing for different purposes. This book provides examples of digital image processing applications and presents recent research on processing concepts and techniques. Chapters cover such topics as image processing in medical physics, binarization, video processing, and more
Improving Fiber Alignment in HARDI by Combining Contextual PDE Flow with Constrained Spherical Deconvolution
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
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