37 research outputs found
Real-time Ultrasound Signals Processing: Denoising and Super-resolution
Ultrasound acquisition is widespread in the biomedical field, due to its properties of low cost, portability, and non-invasiveness for the patient. The processing and analysis of US signals, such as images, 2D videos, and volumetric images, allows the physician to monitor the evolution of the patient's disease, and support diagnosis, and treatments (e.g., surgery). US images are affected by speckle noise, generated by the overlap of US waves. Furthermore, low-resolution images are acquired when a high acquisition frequency is applied to accurately characterise the behaviour of anatomical features that quickly change over time. Denoising and super-resolution of US signals are relevant to improve the visual evaluation of the physician and the performance and accuracy of processing methods, such as segmentation and classification. The main requirements for the processing and analysis of US signals are real-time execution, preservation of anatomical features, and reduction of artefacts. In this context, we present a novel framework for the real-time denoising of US 2D images based on deep learning and high-performance computing, which reduces noise while preserving anatomical features in real-time execution. We extend our framework to the denoise of arbitrary US signals, such as 2D videos and 3D images, and we apply denoising algorithms that account for spatio-temporal signal properties into an image-to-image deep learning model. As a building block of this framework, we propose a novel denoising method belonging to the class of low-rank approximations, which learns and predicts the optimal thresholds of the Singular Value Decomposition. While previous denoise work compromises the computational cost and effectiveness of the method, the proposed framework achieves the results of the best denoising algorithms in terms of noise removal, anatomical feature preservation, and geometric and texture properties conservation, in a real-time execution that respects industrial constraints. The framework reduces the artefacts (e.g., blurring) and preserves the spatio-temporal consistency among frames/slices; also, it is general to the denoising algorithm, anatomical district, and noise intensity. Then, we introduce a novel framework for the real-time reconstruction of the non-acquired scan lines through an interpolating method; a deep learning model improves the results of the interpolation to match the target image (i.e., the high-resolution image). We improve the accuracy of the prediction of the reconstructed lines through the design of the network architecture and the loss function. %The design of the deep learning architecture and the loss function allow the network to improve the accuracy of the prediction of the reconstructed lines. In the context of signal approximation, we introduce our kernel-based sampling method for the reconstruction of 2D and 3D signals defined on regular and irregular grids, with an application to US 2D and 3D images. Our method improves previous work in terms of sampling quality, approximation accuracy, and geometry reconstruction with a slightly higher computational cost. For both denoising and super-resolution, we evaluate the compliance with the real-time requirement of US applications in the medical domain and provide a quantitative evaluation of denoising and super-resolution methods on US and synthetic images. Finally, we discuss the role of denoising and super-resolution as pre-processing steps for segmentation and predictive analysis of breast pathologies
Denoising of Fluorescence Image on the Surface of Quantum Dot/Nanoporous Silicon Biosensors
In the process of biological detection of porous silicon photonic crystals based on quantum dots, the concentration of target organisms can be indirectly measured via the change in the gray value of the fluorescence emitted from the quantum dots in the porous silicon pores before and after the biological reaction on the surface of the device. However, due to the disordered nanostructures in porous silicon and the roughness of the surface, the fluorescence images on the surface contain noise. This paper analyzes the type of noise and its influence on the gray value of fluorescent images. The change in the gray value caused by noise greatly reduces the detection sensitivity. To reduce the influence of noise on the gray value of quantum dot fluorescence images, this paper proposes a denoising method based on gray compression and nonlocal anisotropic diffusion filtering. We used the proposed method to denoise the quantum dot fluorescence image after DNA hybridization in a Bragg structure porous silicon device. The experimental results show that the sensitivity of digital image detection improved significantly after denoising
Self-supervised remote sensing feature learning: Learning Paradigms, Challenges, and Future Works
Deep learning has achieved great success in learning features from massive
remote sensing images (RSIs). To better understand the connection between
feature learning paradigms (e.g., unsupervised feature learning (USFL),
supervised feature learning (SFL), and self-supervised feature learning
(SSFL)), this paper analyzes and compares them from the perspective of feature
learning signals, and gives a unified feature learning framework. Under this
unified framework, we analyze the advantages of SSFL over the other two
learning paradigms in RSIs understanding tasks and give a comprehensive review
of the existing SSFL work in RS, including the pre-training dataset,
self-supervised feature learning signals, and the evaluation methods. We
further analyze the effect of SSFL signals and pre-training data on the learned
features to provide insights for improving the RSI feature learning. Finally,
we briefly discuss some open problems and possible research directions.Comment: 24 pages, 11 figures, 3 table
Self-supervised Learning in Remote Sensing: A Review
In deep learning research, self-supervised learning (SSL) has received great
attention triggering interest within both the computer vision and remote
sensing communities. While there has been a big success in computer vision,
most of the potential of SSL in the domain of earth observation remains locked.
In this paper, we provide an introduction to, and a review of the concepts and
latest developments in SSL for computer vision in the context of remote
sensing. Further, we provide a preliminary benchmark of modern SSL algorithms
on popular remote sensing datasets, verifying the potential of SSL in remote
sensing and providing an extended study on data augmentations. Finally, we
identify a list of promising directions of future research in SSL for earth
observation (SSL4EO) to pave the way for fruitful interaction of both domains.Comment: Accepted by IEEE Geoscience and Remote Sensing Magazine. 32 pages, 22
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Machine Learning for Beamforming in Audio, Ultrasound, and Radar
Multi-sensor signal processing plays a crucial role in the working of several everyday technologies, from correctly understanding speech on smart home devices to ensuring aircraft fly safely. A specific type of multi-sensor signal processing called beamforming forms a central part of this thesis. Beamforming works by combining the information from several spatially distributed sensors to directionally filter information, boosting the signal from a certain direction but suppressing others. The idea of beamforming is key to the domains of audio, ultrasound, and radar.
Machine learning is the other central part of this thesis. Machine learning, and especially its sub-field of deep learning, has enabled breakneck progress in tackling several problems that were previously thought intractable. Today, machine learning powers many of the cutting edge systems we see on the internet for image classification, speech recognition, language translation, and more.
In this dissertation, we look at beamforming pipelines in audio, ultrasound, and radar from a machine learning lens and endeavor to improve different parts of the pipelines using ideas from machine learning. We start off in the audio domain and derive a machine learning inspired beamformer to tackle the problem of ensuring the audio captured by a camera matches its visual content, a problem we term audiovisual zooming. Staying in the audio domain, we then demonstrate how deep learning can be used to improve the perceptual qualities of speech by denoising speech clipping, codec distortions, and gaps in speech.
Transitioning to the ultrasound domain, we improve the performance of short-lag spatial coherence ultrasound imaging by exploiting the differences in tissue texture at each short lag value by applying robust principal component analysis. Next, we use deep learning as an alternative to beamforming in ultrasound and improve the information extraction pipeline by simultaneously generating both a segmentation map and B-mode image of high quality directly from raw received ultrasound data.
Finally, we move to the radar domain and study how deep learning can be used to improve signal quality in ultra-wideband synthetic aperture radar by suppressing radio frequency interference, random spectral gaps, and contiguous block spectral gaps. By training and applying the networks on raw single-aperture data prior to beamforming, it can work with myriad sensor geometries and different beamforming equations, a crucial requirement in synthetic aperture radar
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Deep learning assisted MRI guided attenuation correction in PET
This thesis was submitted for the degree of Doctor of Philosophy and awarded by Brunel University LondonPositron emission tomography (PET) is a unique imaging modality that provides physiological
and functional details of the tissue at the molecular level. However, the acquired PET images
have some limitations such as the attenuation. PET attenuation correction is an essential step to
obtain the full potential of PET quantification. With the wide use of hybrid PET/MR scanners,
magnetic resonance (MR) images are used to address the problem of PET attenuation correction.
The MR images segmentation is one simple and robust approach to create pseudo computed
tomography (CT) images, which are used to generate attenuation coefficient maps to correct the
PET attenuation. Recently, deep learning has been proposed and used as a promising technique
to efficiently perform MR and various medical images segmentation.
In this research work, deep learning guided segmentation approaches have been proposed
to enhance the bone class segmentation of MR brain images in order to generate accurate
pseudo-CT images. The first approach has introduced the combination of handcrafted features
with deep learning features to enrich the set of features. Multiresolution analysis techniques,
which generate multiscale and multidirectional coefficients of an image such as contourlet and
shearlet transforms, are applied and combined with deep convolutional neural network (CNN)
features. Different experiments have been conducted to investigate the number of selected
coefficients and the insertion location of the handcrafted features.
The second approach aims at reducing the segmentation algorithm’s complexity while
maintaining the segmentation performance. An attention based convolutional encode-decoder
network has been proposed to adaptively recalibrate the deep network features. This attention based
network consists of two different squeeze and excitation blocks that excite the features
spatially and channel wise. The two blocks are combined sequentially to decrease the number
of network’s parameters and reduces the model complexity. The third approach has been focuses on the application of transfer learning from different MR sequences such as T1 weighted (T1-w) and T2 weighted (T2-w) images. A
pretrained model with T1-w MR sequences is fine tuned to perform the segmentation of T2-w
images. Multiple fine tuning approaches and experiments have been conducted to study the best
fine tuning mechanism that is able to build an efficient segmentation model for both T1-w and
T2-w segmentation. Clinical datasets of fifty patients with different conditions and diagnosis have been
used to carry an objective evaluation to measure the segmentation performance of the results
obtained by the three proposed methods. The first and second approaches have been validated
with other studies in the literature that applied deep network based segmentation technique to
perform MR based attenuation correction for PET images. The proposed methods have shown
an enhancement in the bone segmentation with an increase of dice similarity coefficient (DSC)
from 0.6179 to 0.6567 using an ensemble of CNNs with an improvement percentage of 6.3%.
The proposed excitation-based CNN has decreased the model complexity by decreasing the
number of trainable parameters by more than 46% where less computing resources are required
to train the model. The proposed hybrid transfer learning method has shown its superiority to
build a multi-sequences (T1-w and T2-w) segmentation approach compared to other applied
transfer learning methods especially with the bone class where the DSC is increased from 0.3841
to 0.5393. Moreover, the hybrid transfer learning approach requires less computing time than
transfer learning using open and conservative fine tuning
Image Restoration for Remote Sensing: Overview and Toolbox
Remote sensing provides valuable information about objects or areas from a
distance in either active (e.g., RADAR and LiDAR) or passive (e.g.,
multispectral and hyperspectral) modes. The quality of data acquired by
remotely sensed imaging sensors (both active and passive) is often degraded by
a variety of noise types and artifacts. Image restoration, which is a vibrant
field of research in the remote sensing community, is the task of recovering
the true unknown image from the degraded observed image. Each imaging sensor
induces unique noise types and artifacts into the observed image. This fact has
led to the expansion of restoration techniques in different paths according to
each sensor type. This review paper brings together the advances of image
restoration techniques with particular focuses on synthetic aperture radar and
hyperspectral images as the most active sub-fields of image restoration in the
remote sensing community. We, therefore, provide a comprehensive,
discipline-specific starting point for researchers at different levels (i.e.,
students, researchers, and senior researchers) willing to investigate the
vibrant topic of data restoration by supplying sufficient detail and
references. Additionally, this review paper accompanies a toolbox to provide a
platform to encourage interested students and researchers in the field to
further explore the restoration techniques and fast-forward the community. The
toolboxes are provided in https://github.com/ImageRestorationToolbox.Comment: This paper is under review in GRS
A precise bare simulation approach to the minimization of some distances. Foundations
In information theory -- as well as in the adjacent fields of statistics,
machine learning, artificial intelligence, signal processing and pattern
recognition -- many flexibilizations of the omnipresent Kullback-Leibler
information distance (relative entropy) and of the closely related Shannon
entropy have become frequently used tools. To tackle corresponding constrained
minimization (respectively maximization) problems by a newly developed
dimension-free bare (pure) simulation method, is the main goal of this paper.
Almost no assumptions (like convexity) on the set of constraints are needed,
within our discrete setup of arbitrary dimension, and our method is precise
(i.e., converges in the limit). As a side effect, we also derive an innovative
way of constructing new useful distances/divergences. To illustrate the core of
our approach, we present numerous examples. The potential for widespread
applicability is indicated, too; in particular, we deliver many recent
references for uses of the involved distances/divergences and entropies in
various different research fields (which may also serve as an interdisciplinary
interface)
Deep learning for inverse problems in remote sensing: super-resolution and SAR despeckling
L'abstract è presente nell'allegato / the abstract is in the attachmen