Papers by Shadrokh Samavi
arXiv (Cornell University), May 16, 2022
Cryptocurrencies are gaining more popularity due to their security, making counterfeits impossibl... more Cryptocurrencies are gaining more popularity due to their security, making counterfeits impossible. However, these digital currencies have been criticized for creating a large carbon footprint due to their algorithmic complexity and decentralized system design for proof of work and mining. We hypothesize that the carbon footprint of cryptocurrency transactions has a higher dependency on carbon-rich fuel sources than green or renewable fuel sources. We provide a machine learning framework to model such transactions and correlate them with the electricity generation patterns to estimate and analyze their carbon cost.
Digital Signal Processing, Aug 1, 2019
The use of 3D and stereo imaging is rapidly increasing. Compression, transmission, and processing... more The use of 3D and stereo imaging is rapidly increasing. Compression, transmission, and processing could degrade the quality of stereo images. Quality assessment of such images is different than their 2D counterparts. Metrics that represent 3D perception by human visual system (HVS) are expected to assess stereoscopic quality more accurately. In this paper, inspired by brain sensory/motor fusion process, two stereo images are fused together. Then from every fused image two synthesized images are extracted. Effects of different distortions on statistical distributions of the synthesized images are shown. Based on the observed statistical changes, features are extracted from these synthesized images. These features can reveal type and severity of distortions. Then, a stacked neural network model is proposed, which learns the extracted features and accurately evaluates the quality of stereo images. This model is tested on 3D images of popular databases. Experimental results show the superiority of this method over state of the art stereo image quality assessment approaches.
Multimedia Tools and Applications
Digital contents have grown dramatically in recent years, leading to increased attention to copyr... more Digital contents have grown dramatically in recent years, leading to increased attention to copyright. Image watermarking has been considered one of the most popular methods for copyright protection. With the recent advancements in the application of deep neural networks in image processing, these networks have also been used in image watermarking. Robustness and imperceptibility are two challenging features of watermarking methods that the trade-off between them should be satisfied. In this paper, we propose to use an end-to-end network for watermarking. We use a convolutional neural network (CNN) to control the embedding strength based on the images' content. Dynamic embedding helps the network to have the lowest effect on the visual quality of the watermarked image. Different image processing attacks are simulated as a network layer to improve the robustness of the model. Our method is a blind watermarking approach that replicates the watermark string to create a matrix of the same size as the input image. Instead of diffusing the watermark data into the input image, we inject the data into the feature space and force the network to do this in regions that increase the robustness against various attacks. Experimental results show the superiority of the proposed method in terms of imperceptibility and robustness compared to the state-of-the-art algorithms.
Biomedical Signal Processing and Control
Brain-computer interface systems aim to facilitate human-computer interactions in a great deal by... more Brain-computer interface systems aim to facilitate human-computer interactions in a great deal by direct translation of brain signals for computers. Recently, using many electrodes has caused better performance in these systems. However, increasing the number of recorded electrodes leads to additional time, hardware, and computational costs besides undesired complications of the recording process. Channel selection has been utilized to decrease data dimension and eliminate irrelevant channels while reducing the noise effects. Furthermore, the technique lowers the time and computational costs in real-time applications. We present a channel selection method, which combines a sequential search method with a genetic algorithm called Deep GA Fitness Formation (DGAFF). The proposed method accelerates the convergence of the genetic algorithm and increases the system's performance. The system evaluation is based on a lightweight deep neural network that automates the whole model training process. The proposed method outperforms other channel selection methods in classifying motor imagery on the utilized dataset.
arXiv (Cornell University), Aug 19, 2021
Coronavirus has caused hundreds of thousands of deaths. Fatalities could decrease if every patien... more Coronavirus has caused hundreds of thousands of deaths. Fatalities could decrease if every patient could get suitable treatment by the healthcare system. Machine learning, especially computer vision methods based on deep learning, can help healthcare professionals diagnose and treat COVID-19 infected cases more efficiently. Hence, infected patients can get better service from the healthcare system and decrease the number of deaths caused by the coronavirus. This research proposes a method for segmenting infected lung regions in a CT image. For this purpose, a convolutional neural network with an attention mechanism is used to detect infected areas with complex patterns. Attention blocks improve the segmentation accuracy by focusing on informative parts of the image. Furthermore, a generative adversarial network generates synthetic images for data augmentation and expansion of small available datasets. Experimental results show the superiority of the proposed method compared to some existing procedures.
arXiv (Cornell University), Nov 1, 2020
According to the World Health Organization (WHO), cancer is the second leading cause of death wor... more According to the World Health Organization (WHO), cancer is the second leading cause of death worldwide, responsible for over 9.5 million deaths in 2018 alone. Brain tumors count for one out of every four cancer deaths. Therefore, accurate and timely diagnosis of brain tumors will lead to more effective treatments. Physicians classify brain tumors only with biopsy operation by brain surgery, and after diagnosing the type of tumor, a treatment plan is considered for the patient. Automatic systems based on machine learning algorithms can allow physicians to diagnose brain tumors with noninvasive measures. To date, several image classification approaches have been proposed to aid diagnosis and treatment. For brain tumor classification in this work, we offer a system based on deep learning, containing encoder blocks. These blocks are fed with post-max-pooling features as residual learning. Our approach shows promising results by improving the tumor classification accuracy in Magnetic resonance imaging (MRI) images using a limited medical image dataset. Experimental evaluations of this model on a dataset consisting of 3064 MR images show 95.98% accuracy, which is better than previous studies on this database.
arXiv (Cornell University), May 1, 2019
Next to the high performance, the essential feature of the multiprocessor systems is their fault-... more Next to the high performance, the essential feature of the multiprocessor systems is their fault-tolerant capability. In this regard, faulttolerant interconnection networks and especially fault-tolerant routing methods are crucial parts of these systems. Hypercube is a popular interconnection network that is used in many multiprocessors. There are several suggested practices for fault tolerant routing in these systems. In this paper, a neural routing method is introduced which is named as Fault Avoidance Routing (FAR). This method keeps the message as far from the faulty nodes as possible. The proposed method employs the Hopfield neural network. In comparison with other neural routing methods, FAR requires a small number of neurons. The simulation results show that FAR has excellent performance in larger interconnection networks and networks with a high density of faulty nodes.
arXiv (Cornell University), Jul 24, 2020
Brain signals could be used to control devices to assist individuals with disabilities. Signals s... more Brain signals could be used to control devices to assist individuals with disabilities. Signals such as electroencephalograms are complicated and hard to interpret. A set of signals are collected and should be classified to identify the intention of the subject. Different approaches have tried to reduce the number of channels before sending them to a classifier. We are proposing a deep learningbased method for selecting an informative subset of channels that produce high classification accuracy. The proposed network could be trained for an individual subject to select an appropriate set of channels. The channel section could reduce the complexity of brain-computer-interface devices. Our method could find a subset of channels. The accuracy of our approach is comparable with a model trained on all channels. Hence, our model's temporal and power costs are low, while its accuracy is kept high.
arXiv (Cornell University), Dec 28, 2021
Brain tumor analysis in MRI images is a significant and challenging issue because misdiagnosis ca... more Brain tumor analysis in MRI images is a significant and challenging issue because misdiagnosis can lead to death. Diagnosis and evaluation of brain tumors in the early stages increase the probability of successful treatment. However, the complexity and variety of tumors, shapes, and locations make their segmentation and classification complex. In this regard, numerous researchers have proposed brain tumor segmentation and classification methods. This paper presents an approach that simultaneously segments and classifies brain tumors in MRI images using a framework that contains MRI image enhancement and tumor region detection. Eventually, a network based on a multitask learning approach is proposed. Subjective and objective results indicate that the segmentation and classification results based on evaluation metrics are better or comparable to the state-of-the-art.
2018 25th IEEE International Conference on Image Processing (ICIP), 2018
Retinal vessel information is helpful in retinal disease screening and diagnosis. Retinal vessel ... more Retinal vessel information is helpful in retinal disease screening and diagnosis. Retinal vessel segmentation provides useful information about vessels and can be used by physicians during intraocular surgery and retinal diagnostic operations. Convolutional neural networks (CNNs) are powerful tools for classification and segmentation of medical images. Complexity of CNNs makes it difficult to implement them in portable devices such as binocular indirect ophthalmoscopes. In this paper a simplification approach is proposed for CNNs based on combination of quantization and pruning. Fully connected layers are quantized and convolutional layers are pruned to have a simple and efficient network structure. Experiments on images of the STARE dataset show that our simplified network is able to segment retinal vessels with acceptable accuracy and low complexity.
ArXiv, 2018
Deep neural networks have shown great achievements in solving complex problems. However, there ar... more Deep neural networks have shown great achievements in solving complex problems. However, there are fundamental problems that limit their real world applications. Lack of measurable criteria for estimating uncertainty in the network outputs is one of these problems. In this paper, we address this limitation by introducing deformation to the network input and measuring the level of stability in the network's output. We calculate simple random transformations to estimate the prediction uncertainty of deep convolutional neural networks. For a real use-case, we apply this method to left ventricle segmentation in MRI cardiac images. We also propose an adaptive thresholding method to consider the deep neural network uncertainty. Experimental results demonstrate state-of-the-art performance and highlight the capabilities of simple methods in conjunction with deep neural networks.
ArXiv, 2021
Generative adversarial networks or GANs are a type of generative modeling framework. GANs involve... more Generative adversarial networks or GANs are a type of generative modeling framework. GANs involve a pair of neural networks engaged in a competition in iteratively creating fake data, indistinguishable from the real data. One notable application of GANs is developing fake human faces, also known as “deep fakes,” due to the deep learning algorithms at the core of the GAN framework. Measuring the quality of the generated images is inherently subjective but attempts to objectify quality using standardized metrics have been made. One example of objective metrics is the Fréchet Inception Distance (FID), which measures the difference between distributions of feature vectors for two separate datasets of images. There are situations that images with low perceptual qualities are not assigned appropriate FID scores. We propose to improve the robustness of the evaluation process by integrating lower-level features to cover a wider array of visual defects. Our proposed method integrates three l...
ArXiv, 2017
In the recent years image processing techniques are used as a tool to improve detection and diagn... more In the recent years image processing techniques are used as a tool to improve detection and diagnostic capabilities in the medical applications. Medical applications have been so much affected by these techniques which some of them are embedded in medical instruments such as MRI, CT and other medical devices. Among these techniques, medical image enhancement algorithms play an essential role in removal of the noise which can be produced by medical instruments and during image transfer. It has been proved that impulse noise is a major type of noise, which is produced during medical operations, such as MRI, CT, and angiography, by their image capturing devices. An embeddable hardware module which is able to denoise medical images before and during surgical operations could be very helpful. In this paper an accurate algorithm is proposed for real-time removal of impulse noise in medical images. All image blocks are divided into three categories of edge, smooth, and disordered areas. A ...
ArXiv, 2018
Recent advances in capsule endoscopy systems have introduced new methods and capabilities. The ca... more Recent advances in capsule endoscopy systems have introduced new methods and capabilities. The capsule endoscopy system, by observing the entire digestive tract, has significantly improved diagnosing gastrointestinal disorders and diseases. The system has challenges such as the need to enhance the quality of the transmitted images, low frame rates of transmission, and battery lifetime that need to be addressed. One of the important parts of a capsule endoscopy system is the image compression unit. Better compression of images increases the frame rate and hence improves the diagnosis process. In this paper a high precision compression algorithm with high compression ratio is proposed. In this algorithm we use the similarity between frames to compress the data more efficiently.
2018 40th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC), 2018
Reversible image watermarking guaranties restoration of both original cover and watermark logo fr... more Reversible image watermarking guaranties restoration of both original cover and watermark logo from the watermarked image. Capacity and distortion of the image under reversible watermarking are two important parameters. In this study a reversible watermarking is investigated with focusing on increasing the embedding capacity and reducing the distortion in medical images. Integer wavelet transform is used for embedding where in each iteration, one watermark bit is embedded in one transform coefficient. We devise a novel approach that when a coefficient is modified in an iteration, the produced distortion is compensated in the next iteration. This distortion compensation method would result in low distortion rate. The proposed method is tested on four types of medical images including MRI of brain, cardiac MRI, MRI of breast, and intestinal polyp images. Using a one-level wavelet transform, maximum capacity of 1.5 BPP is obtained. Experimental results demonstrate that the proposed method is superior to the state-of-the-art works in terms of capacity and distortion.
2019 41st Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC), 2019
Ultrasound imaging is a standard examination during pregnancy that can be used for measuring spec... more Ultrasound imaging is a standard examination during pregnancy that can be used for measuring specific biometric parameters towards prenatal diagnosis and estimating gestational age. Fetal head circumference (HC) is one of the significant factors to determine the fetus growth and health. In this paper, a multi-task deep convolutional neural network is proposed for automatic segmentation and estimation of HC ellipse by minimizing a compound cost function composed of segmentation dice score and MSE of ellipse parameters. Experimental results on fetus ultrasound dataset in different trimesters of pregnancy show that the segmentation results and the extracted HC match well with the radiologist annotations. The obtained dice scores of the fetal head segmentation and the accuracy of HC evaluations are comparable to the state-of-the-art. I. INTRODUCTION Ultrasound (US) imaging is a safe non-invasive procedure for diagnosing internal body organs. Ultrasound imaging as compared to other imaging tools, such as computed tomography (CT) and magnetic resonance imaging (MRI), is cheaper, portable and more prevalent [1]. It helps to diagnose the causes of pain, swelling, and infection in internal organs, for evaluation and treatment of medical conditions [2]. Ultrasound imaging has turned into a general checkup method for prenatal diagnosis. It is used to investigate and measure fetal biometric parameters, such as the baby's abdominal circumference, head circumference, biparietal diameter, femur and humerus length, and crown-rump length. Furthermore, the fetal head circumference (HC) is measured for estimating the gestational age, size and weight, growth monitoring and detecting fetus abnormalities [3]. Despite all the benefits and typical applications of US imaging, this imaging modality suffers from various artifacts such as motion blurring, missing boundaries, acoustic shadows, speckle noise, and low signal-to-noise ratio. This makes the US images very challenging to interpret, which requires expert operators. As shown in US image samples of
Artificial Intelligence in Medicine, 2021
Over the last decade, advances in Machine Learning and Artificial Intelligence have highlighted t... more Over the last decade, advances in Machine Learning and Artificial Intelligence have highlighted their potential as a diagnostic tool in the healthcare domain. Despite the widespread availability of medical images, their usefulness is severely hampered by a lack of access to labeled data. For example, while Convolutional Neural Networks (CNNs) have emerged as an essential analytical tool in image processing, their impact is curtailed by training limitations due to insufficient availability of labeled data. Transfer learning enables models developed for one task to be reused for a second task. Knowledge distillation allows transferring knowledge from a pre-trained model to another. However, it suffers from limitations, and constraints related to the two models need to be architecturally similar. Knowledge distillation addresses some of the shortcomings associated with transfer learning by generalizing a complex model to a lighter model. However, some parts of the knowledge may not be distilled by knowledge distillation sufficiently. In this paper, a novel knowledge distillation approach using transfer learning is proposed. The proposed method transfers the entire knowledge of a model to a new smaller one. To accomplish this, unlabeled data are used in an unsupervised manner to transfer the maximum amount of knowledge to the new slimmer model. The proposed method can be beneficial in medical image analysis, where labeled data are typically scarce. The proposed approach is evaluated in the context of classification of images for diagnosing Diabetic Retinopathy on two publicly available datasets, including Messidor and EyePACS. Simulation results demonstrate that the approach is effective in transferring knowledge from a complex model to a lighter one. Furthermore, experimental results illustrate that the performance of different small models is improved significantly using unlabeled data and knowledge distillation.
2018 40th Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC), 2018
Medical image analysis, especially segmenting a specific organ, has an important role in developi... more Medical image analysis, especially segmenting a specific organ, has an important role in developing clinical decision support systems. In cardiac magnetic resonance (MR) imaging, segmenting the left and right ventricles helps physicians diagnose different heart abnormalities. There are challenges for this task, including the intensity and shape similarity between left ventricle and other organs, inaccurate boundaries and presence of noise in most of the images. In this paper we propose an automated method for segmenting the left ventricle in cardiac MR images. We first automatically extract the region of interest, and then employ it as an input of a fully convolutional network. We train the network accurately despite the small number of left ventricle pixels in comparison with the whole image. Thresholding on the output map of the fully convolutional network and selection of regions based on their roundness are performed in our proposed post-processing phase. The Dice score of our method reaches 87.24% by applying this algorithm on the York dataset of heart images.
2019 41st Annual International Conference of the IEEE Engineering in Medicine and Biology Society (EMBC), 2019
Histopathology images contain essential information for medical diagnosis and prognosis of cancer... more Histopathology images contain essential information for medical diagnosis and prognosis of cancerous disease. Segmentation of glands in histopathology images is a primary step for analysis and diagnosis of an unhealthy patient. Due to the widespread application and the great success of deep neural networks in intelligent medical diagnosis and histopathology, we propose a modified version of LinkNet for gland segmentation and recognition of malignant cases. We show that using specific handcrafted features such as invariant local binary pattern drastically improves the system performance. The experimental results demonstrate the competency of the proposed system against the state-of-the-art methods. We achieved the best results in testing on section B images of the Warwick-QU dataset and obtained comparable results on section A images.
Computerized Medical Imaging and Graphics, 2020
This is a PDF file of an article that has undergone enhancements after acceptance, such as the ad... more This is a PDF file of an article that has undergone enhancements after acceptance, such as the addition of a cover page and metadata, and formatting for readability, but it is not yet the definitive version of record. This version will undergo additional copyediting, typesetting and review before it is published in its final form, but we are providing this version to give early visibility of the article. Please note that, during the production process, errors may be discovered which could affect the content, and all legal disclaimers that apply to the journal pertain.
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Papers by Shadrokh Samavi