Limited throughput is a key challenge in in-vivo deep-tissue imaging using nonlinear optical microscopy. Point scanning multiphoton microscopy, the current gold standard, is slow especially compared to the wide-field imaging modalities used for optically cleared or thin specimens. We recently introduced 'De-scattering with Excitation Patterning or DEEP', as a widefield alternative to point-scanning geometries. Using patterned multiphoton excitation, DEEP encodes spatial information inside tissue before scattering. However, to de-scatter at typical depths, hundreds of such patterned excitations are needed. In this work, we present DEEP$^2$, a deep learning based model, that can de-scatter images from just tens of patterned excitations instead of hundreds. Consequently, we improve DEEP's throughput by almost an order of magnitude. We demonstrate our method in multiple numerical and physical experiments including in-vivo cortical vasculature imaging up to four scattering lengths deep, in alive mice.
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Federated learning has attracted increasing attention with the emergence of distributed data. While extensive federated learning algorithms have been proposed for the non-convex distributed problem, the federated learning in practice still faces numerous challenges, such as the large training iterations to converge since the sizes of models and datasets keep increasing, and the lack of adaptivity by SGD-based model updates. Meanwhile, the study of adaptive methods in federated learning is scarce and existing works either lack a complete theoretical convergence guarantee or have slow sample complexity. In this paper, we propose an efficient adaptive algorithm (i.e., FAFED) based on the momentum-based variance reduced technique in cross-silo FL. We first explore how to design the adaptive algorithm in the FL setting. By providing a counter-example, we prove that a simple combination of FL and adaptive methods could lead to divergence. More importantly, we provide a convergence analysis for our method and prove that our algorithm is the first adaptive FL algorithm to reach the best-known samples $O(\epsilon^{-3})$ and $O(\epsilon^{-2})$ communication rounds to find an $\epsilon$-stationary point without large batches. The experimental results on the language modeling task and image classification task with heterogeneous data demonstrate the efficiency of our algorithms.
Intensive Care Units usually carry patients with a serious risk of mortality. Recent research has shown the ability of Machine Learning to indicate the patients' mortality risk and point physicians toward individuals with a heightened need for care. Nevertheless, healthcare data is often subject to privacy regulations and can therefore not be easily shared in order to build Centralized Machine Learning models that use the combined data of multiple hospitals. Federated Learning is a Machine Learning framework designed for data privacy that can be used to circumvent this problem. In this study, we evaluate the ability of deep Federated Learning to predict the risk of Intensive Care Unit mortality at an early stage. We compare the predictive performance of Federated, Centralized, and Local Machine Learning in terms of AUPRC, F1-score, and AUROC. Our results show that Federated Learning performs equally well as the centralized approach and is substantially better than the local approach, thus providing a viable solution for early Intensive Care Unit mortality prediction. In addition, we show that the prediction performance is higher when the patient history window is closer to discharge or death. Finally, we show that using the F1-score as an early stopping metric can stabilize and increase the performance of our approach for the task at hand.
The convolution computation is widely used in many fields, especially in CNNs. Because of the rapid growth of the training data in CNNs, GPUs have been used for the acceleration, and memory-efficient algorithms are focused because of thier high performance. In this paper, we propose two convolution kernels for single-channel convolution and multi-channel convolution respectively. Our two methods achieve high performance by hiding the access delay of the global memory efficiently, and achieving high ratio of floating point Fused Multiply-Add operations per fetched data from the global memory. In comparison to the latest Cudnn library developed by Nvidia aimed to accelerate the deep-learning computation, the average performance improvement by our research is 2.6X for the single-channel, and 1.4X for the multi-channel.
Jacobian and Hessian regularization aim to reduce the magnitude of the first and second-order partial derivatives with respect to neural network inputs, and they are predominantly used to ensure the adversarial robustness of image classifiers. In this work, we generalize previous efforts by extending the target matrix from zero to any matrix that admits efficient matrix-vector products. The proposed paradigm allows us to construct novel regularization terms that enforce symmetry or diagonality on square Jacobian and Hessian matrices. On the other hand, the major challenge for Jacobian and Hessian regularization has been high computational complexity. We introduce Lanczos-based spectral norm minimization to tackle this difficulty. This technique uses a parallelized implementation of the Lanczos algorithm and is capable of effective and stable regularization of large Jacobian and Hessian matrices. Theoretical justifications and empirical evidence are provided for the proposed paradigm and technique. We carry out exploratory experiments to validate the effectiveness of our novel regularization terms. We also conduct comparative experiments to evaluate Lanczos-based spectral norm minimization against prior methods. Results show that the proposed methodologies are advantageous for a wide range of tasks.
We tackle the problem of novel class discovery and localization (NCDL). In this setting, we assume a source dataset with supervision for only some object classes. Instances of other classes need to be discovered, classified, and localized automatically based on visual similarity without any human supervision. To tackle NCDL, we propose a two-stage object detection network Region-based NCDL (RNCDL) that uses a region proposal network to localize regions of interest (RoIs). We then train our network to learn to classify each RoI, either as one of the known classes, seen in the source dataset, or one of the novel classes, with a long-tail distribution constraint on the class assignments, reflecting the natural frequency of classes in the real world. By training our detection network with this objective in an end-to-end manner, it learns to classify all region proposals for a large variety of classes, including those not part of the labeled object class vocabulary. Our experiments conducted using COCO and LVIS datasets reveal that our method is significantly more effective than multi-stage pipelines that rely on traditional clustering algorithms. Furthermore, we demonstrate the generality of our approach by applying our method to a large-scale Visual Genome dataset, where our network successfully learns to detect various semantic classes without direct supervision.
Buildings' segmentation is a fundamental task in the field of earth observation and aerial imagery analysis. Most existing deep learning-based methods in the literature can be applied to fixed or narrow-ranged spatial resolution imagery. In practical scenarios, users deal with a broad spectrum of image resolutions. Thus, a given aerial image often needs to be re-sampled to match the spatial resolution of the dataset used to train the deep learning model, which results in a degradation in segmentation performance. To overcome this, we propose a Scale-invariant Neural Network (Sci-Net) that can segment buildings present in aerial images at different spatial resolutions. Specifically, our approach leverages UNet hierarchical representations and dilated convolutions to extract fine-grained multi-scale representations. Our method significantly outperforms other state of the art models on the Open Cities AI dataset with a steady improvements margin across different resolutions.
The adaptive processing of structured data is a long-standing research topic in machine learning that investigates how to automatically learn a mapping from a structured input to outputs of various nature. Recently, there has been an increasing interest in the adaptive processing of graphs, which led to the development of different neural network-based methodologies. In this thesis, we take a different route and develop a Bayesian Deep Learning framework for graph learning. The dissertation begins with a review of the principles over which most of the methods in the field are built, followed by a study on graph classification reproducibility issues. We then proceed to bridge the basic ideas of deep learning for graphs with the Bayesian world, by building our deep architectures in an incremental fashion. This framework allows us to consider graphs with discrete and continuous edge features, producing unsupervised embeddings rich enough to reach the state of the art on several classification tasks. Our approach is also amenable to a Bayesian nonparametric extension that automatizes the choice of almost all model's hyper-parameters. Two real-world applications demonstrate the efficacy of deep learning for graphs. The first concerns the prediction of information-theoretic quantities for molecular simulations with supervised neural models. After that, we exploit our Bayesian models to solve a malware-classification task while being robust to intra-procedural code obfuscation techniques. We conclude the dissertation with an attempt to blend the best of the neural and Bayesian worlds together. The resulting hybrid model is able to predict multimodal distributions conditioned on input graphs, with the consequent ability to model stochasticity and uncertainty better than most works. Overall, we aim to provide a Bayesian perspective into the articulated research field of deep learning for graphs.
Deep Learning has revolutionized the fields of computer vision, natural language understanding, speech recognition, information retrieval and more. However, with the progressive improvements in deep learning models, their number of parameters, latency, resources required to train, etc. have all have increased significantly. Consequently, it has become important to pay attention to these footprint metrics of a model as well, not just its quality. We present and motivate the problem of efficiency in deep learning, followed by a thorough survey of the five core areas of model efficiency (spanning modeling techniques, infrastructure, and hardware) and the seminal work there. We also present an experiment-based guide along with code, for practitioners to optimize their model training and deployment. We believe this is the first comprehensive survey in the efficient deep learning space that covers the landscape of model efficiency from modeling techniques to hardware support. Our hope is that this survey would provide the reader with the mental model and the necessary understanding of the field to apply generic efficiency techniques to immediately get significant improvements, and also equip them with ideas for further research and experimentation to achieve additional gains.
Transfer learning aims at improving the performance of target learners on target domains by transferring the knowledge contained in different but related source domains. In this way, the dependence on a large number of target domain data can be reduced for constructing target learners. Due to the wide application prospects, transfer learning has become a popular and promising area in machine learning. Although there are already some valuable and impressive surveys on transfer learning, these surveys introduce approaches in a relatively isolated way and lack the recent advances in transfer learning. As the rapid expansion of the transfer learning area, it is both necessary and challenging to comprehensively review the relevant studies. This survey attempts to connect and systematize the existing transfer learning researches, as well as to summarize and interpret the mechanisms and the strategies in a comprehensive way, which may help readers have a better understanding of the current research status and ideas. Different from previous surveys, this survey paper reviews over forty representative transfer learning approaches from the perspectives of data and model. The applications of transfer learning are also briefly introduced. In order to show the performance of different transfer learning models, twenty representative transfer learning models are used for experiments. The models are performed on three different datasets, i.e., Amazon Reviews, Reuters-21578, and Office-31. And the experimental results demonstrate the importance of selecting appropriate transfer learning models for different applications in practice.
With the rapid increase of large-scale, real-world datasets, it becomes critical to address the problem of long-tailed data distribution (i.e., a few classes account for most of the data, while most classes are under-represented). Existing solutions typically adopt class re-balancing strategies such as re-sampling and re-weighting based on the number of observations for each class. In this work, we argue that as the number of samples increases, the additional benefit of a newly added data point will diminish. We introduce a novel theoretical framework to measure data overlap by associating with each sample a small neighboring region rather than a single point. The effective number of samples is defined as the volume of samples and can be calculated by a simple formula $(1-\beta^{n})/(1-\beta)$, where $n$ is the number of samples and $\beta \in [0,1)$ is a hyperparameter. We design a re-weighting scheme that uses the effective number of samples for each class to re-balance the loss, thereby yielding a class-balanced loss. Comprehensive experiments are conducted on artificially induced long-tailed CIFAR datasets and large-scale datasets including ImageNet and iNaturalist. Our results show that when trained with the proposed class-balanced loss, the network is able to achieve significant performance gains on long-tailed datasets.
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