The number of international benchmarking competitions is steadily increasing in various fields of machine learning (ML) research and practice. So far, however, little is known about the common practice as well as bottlenecks faced by the community in tackling the research questions posed. To shed light on the status quo of algorithm development in the specific field of biomedical imaging analysis, we designed an international survey that was issued to all participants of challenges conducted in conjunction with the IEEE ISBI 2021 and MICCAI 2021 conferences (80 competitions in total). The survey covered participants' expertise and working environments, their chosen strategies, as well as algorithm characteristics. A median of 72% challenge participants took part in the survey. According to our results, knowledge exchange was the primary incentive (70%) for participation, while the reception of prize money played only a minor role (16%). While a median of 80 working hours was spent on method development, a large portion of participants stated that they did not have enough time for method development (32%). 25% perceived the infrastructure to be a bottleneck. Overall, 94% of all solutions were deep learning-based. Of these, 84% were based on standard architectures. 43% of the respondents reported that the data samples (e.g., images) were too large to be processed at once. This was most commonly addressed by patch-based training (69%), downsampling (37%), and solving 3D analysis tasks as a series of 2D tasks. K-fold cross-validation on the training set was performed by only 37% of the participants and only 50% of the participants performed ensembling based on multiple identical models (61%) or heterogeneous models (39%). 48% of the respondents applied postprocessing steps.

非常希望知道模型的预测是多么不确定，特别是对于复杂的模型和难以理解的模型，如深度学习。虽然在扩散加权MRI中使用深度学习方法，但事先作品没有解决模型不确定性的问题。在这里，我们提出了一种深入的学习方法来估计扩散张量并计算估计不确定性。数据相关的不确定性由网络直接计算，并通过损耗衰减学习。使用Monte Carlo辍学来计算模型不确定性。我们还提出了一种评估预测不确定性的质量的新方法。我们将新方法与标准最小二乘张量估计和基于引导的不确定性计算技术进行比较。我们的实验表明，当测量数量小时，深度学习方法更准确，并且其不确定性预测比标准方法更好地校准。我们表明，新方法计算的估计不确定性可以突出显示模型的偏置，检测域移位，并反映测量中的噪声强度。我们的研究表明了基于深度学习的扩散MRI分析中建模预测不确定性的重要性和实际价值。

Convolutional Neural Networks (CNNs) have shown to be powerful medical image segmentation models. In this study, we address some of the main unresolved issues regarding these models. Specifically, training of these models on small medical image datasets is still challenging, with many studies promoting techniques such as transfer learning. Moreover, these models are infamous for producing over-confident predictions and for failing silently when presented with out-of-distribution (OOD) data at test time. In this paper, we advocate for multi-task learning, i.e., training a single model on several different datasets, spanning several different organs of interest and different imaging modalities. We show that not only a single CNN learns to automatically recognize the context and accurately segment the organ of interest in each context, but also that such a joint model often has more accurate and better-calibrated predictions than dedicated models trained separately on each dataset. Our experiments show that multi-task learning can outperform transfer learning in medical image segmentation tasks. For detecting OOD data, we propose a method based on spectral analysis of CNN feature maps. We show that different datasets, representing different imaging modalities and/or different organs of interest, have distinct spectral signatures, which can be used to identify whether or not a test image is similar to the images used to train a model. We show that this approach is far more accurate than OOD detection based on prediction uncertainty. The methods proposed in this paper contribute significantly to improving the accuracy and reliability of CNN-based medical image segmentation models.

With the growth of editing and sharing images through the internet, the importance of protecting the images' authorship has increased. Robust watermarking is a known approach to maintaining copyright protection. Robustness and imperceptibility are two factors that are tried to be maximized through watermarking. Usually, there is a trade-off between these two parameters. Increasing the robustness would lessen the imperceptibility of the watermarking. This paper proposes an adaptive method that determines the strength of the watermark embedding in different parts of the cover image regarding its texture and brightness. Adaptive embedding increases the robustness while preserving the quality of the watermarked image. Experimental results also show that the proposed method can effectively reconstruct the embedded payload in different kinds of common watermarking attacks. Our proposed method has shown good performance compared to a recent technique.

The ability to convert reciprocating, i.e., alternating, actuation into rotary motion using linkages is hindered fundamentally by their poor torque transmission capability around kinematic singularity configurations. Here, we harness the elastic potential energy of a linear spring attached to the coupler link of four-bar mechanisms to manipulate force transmission around the kinematic singularities. We developed a theoretical model to explore the parameter space for proper force transmission in slider-crank and rocker-crank four-bar kinematics. Finally, we verified the proposed model and methodology by building and testing a macro-scale prototype of a slider-crank mechanism. We expect this approach to enable the development of small-scale rotary engines and robotic devices with closed kinematic chains dealing with serial kinematic singularities, such as linkages and parallel manipulators.

Recently, many attempts have been made to construct a transformer base U-shaped architecture, and new methods have been proposed that outperformed CNN-based rivals. However, serious problems such as blockiness and cropped edges in predicted masks remain because of transformers' patch partitioning operations. In this work, we propose a new U-shaped architecture for medical image segmentation with the help of the newly introduced focal modulation mechanism. The proposed architecture has asymmetric depths for the encoder and decoder. Due to the ability of the focal module to aggregate local and global features, our model could simultaneously benefit the wide receptive field of transformers and local viewing of CNNs. This helps the proposed method balance the local and global feature usage to outperform one of the most powerful transformer-based U-shaped models called Swin-UNet. We achieved a 1.68% higher DICE score and a 0.89 better HD metric on the Synapse dataset. Also, with extremely limited data, we had a 4.25% higher DICE score on the NeoPolyp dataset. Our implementations are available at: https://github.com/givkashi/Focal-UNet

Explainability has become a central requirement for the development, deployment, and adoption of machine learning (ML) models and we are yet to understand what explanation methods can and cannot do. Several factors such as data, model prediction, hyperparameters used in training the model, and random initialization can all influence downstream explanations. While previous work empirically hinted that explanations (E) may have little relationship with the prediction (Y), there is a lack of conclusive study to quantify this relationship. Our work borrows tools from causal inference to systematically assay this relationship. More specifically, we measure the relationship between E and Y by measuring the treatment effect when intervening on their causal ancestors (hyperparameters) (inputs to generate saliency-based Es or Ys). We discover that Y's relative direct influence on E follows an odd pattern; the influence is higher in the lowest-performing models than in mid-performing models, and it then decreases in the top-performing models. We believe our work is a promising first step towards providing better guidance for practitioners who can make more informed decisions in utilizing these explanations by knowing what factors are at play and how they relate to their end task.

In classic reinforcement learning algorithms, agents make decisions at discrete and fixed time intervals. The physical duration between one decision and the next becomes a critical hyperparameter. When this duration is too short, the agent needs to make many decisions to achieve its goal, aggravating the problem's difficulty. But when this duration is too long, the agent becomes incapable of controlling the system. Physical systems, however, do not need a constant control frequency. For learning agents, it is desirable to operate with low frequency when possible and high frequency when necessary. We propose a framework called Continuous-Time Continuous-Options (CTCO), where the agent chooses options as sub-policies of variable durations. Such options are time-continuous and can interact with the system at any desired frequency providing a smooth change of actions. The empirical analysis shows that our algorithm is competitive w.r.t. other time-abstraction techniques, such as classic option learning and action repetition, and practically overcomes the difficult choice of the decision frequency.

Synergetic use of sensors for soil moisture retrieval is attracting considerable interest due to the different advantages of different sensors. Active, passive, and optic data integration could be a comprehensive solution for exploiting the advantages of different sensors aimed at preparing soil moisture maps. Typically, pixel-based methods are used for multi-sensor fusion. Since, different applications need different scales of soil moisture maps, pixel-based approaches are limited for this purpose. Object-based image analysis employing an image object instead of a pixel could help us to meet this need. This paper proposes a segment-based image fusion framework to evaluate the possibility of preparing a multi-scale soil moisture map through integrated Sentinel-1, Sentinel-2, and Soil Moisture Active Passive (SMAP) data. The results confirmed that the proposed methodology was able to improve soil moisture estimation in different scales up to 20% better compared to pixel-based fusion approach.

We propose a principled way to define Gaussian process priors on various sets of unweighted graphs: directed or undirected, with or without loops. We endow each of these sets with a geometric structure, inducing the notions of closeness and symmetries, by turning them into a vertex set of an appropriate metagraph. Building on this, we describe the class of priors that respect this structure and are analogous to the Euclidean isotropic processes, like squared exponential or Mat\'ern. We propose an efficient computational technique for the ostensibly intractable problem of evaluating these priors' kernels, making such Gaussian processes usable within the usual toolboxes and downstream applications. We go further to consider sets of equivalence classes of unweighted graphs and define the appropriate versions of priors thereon. We prove a hardness result, showing that in this case, exact kernel computation cannot be performed efficiently. However, we propose a simple Monte Carlo approximation for handling moderately sized cases. Inspired by applications in chemistry, we illustrate the proposed techniques on a real molecular property prediction task in the small data regime.