Artificial Intelligence (AI) is having a tremendous impact across most areas of science. Applications of AI in healthcare have the potential to improve our ability to detect, diagnose, prognose, and intervene on human disease. For AI models to be used clinically, they need to be made safe, reproducible and robust, and the underlying software framework must be aware of the particularities (e.g. geometry, physiology, physics) of medical data being processed. This work introduces MONAI, a freely available, community-supported, and consortium-led PyTorch-based framework for deep learning in healthcare. MONAI extends PyTorch to support medical data, with a particular focus on imaging, and provide purpose-specific AI model architectures, transformations and utilities that streamline the development and deployment of medical AI models. MONAI follows best practices for software-development, providing an easy-to-use, robust, well-documented, and well-tested software framework. MONAI preserves the simple, additive, and compositional approach of its underlying PyTorch libraries. MONAI is being used by and receiving contributions from research, clinical and industrial teams from around the world, who are pursuing applications spanning nearly every aspect of healthcare.

语义分割是医学图像计算中最受欢迎的研究领域之一。也许令人惊讶的是，尽管它可以追溯到2018年，但NNU-NET仍在为各种细分问题提供竞争性的开箱即用解决方案，并定期用作挑战挑战算法的开发框架。在这里，我们使用NNU-NET参与AMOS2022挑战，该挑战带有一套独特的任务：数据集不仅是有史以来最大的最大的数据集，而且拥有15个目标结构，而且竞争还需要提交的解决方案来处理这两种MRI和CT扫描。通过仔细修改NNU-NET的超参数，在编码器中添加剩余连接以及设计自定义后处理策略，我们能够实质上改进NNU-NET基线。我们的最终合奏在任务1（CT）的骰子得分为90.13，而任务2（CT+MRI）的骰子得分为89.06，在提供的培训案例中进行了5倍的交叉验证。

自动生物医学图像分析的领域至关重要地取决于算法验证的可靠和有意义的性能指标。但是，当前的度量使用通常是不明智的，并且不能反映基本的域名。在这里，我们提出了一个全面的框架，该框架指导研究人员以问题意识的方式选择绩效指标。具体而言，我们专注于生物医学图像分析问题，这些问题可以解释为图像，对象或像素级别的分类任务。该框架首先编译域兴趣 - 目标结构 - ，数据集和算法与输出问题相关的属性的属性与问题指纹相关，同时还将其映射到适当的问题类别，即图像级分类，语义分段，实例，实例细分或对象检测。然后，它指导用户选择和应用一组适当的验证指标的过程，同时使他们意识到与个人选择相关的潜在陷阱。在本文中，我们描述了指标重新加载推荐框架的当前状态，目的是从图像分析社区获得建设性的反馈。当前版本是在由60多个图像分析专家的国际联盟中开发的，将在社区驱动的优化之后公开作为用户友好的工具包提供。

在医学图像中的对象的同时定位和分类，也称为医学对象检测，是高临床相关性，因为诊断决策通常依赖于物体的评级而不是例如像素。对于此任务，方法配置的繁琐和迭代过程构成了一个主要的研究瓶颈。最近，NNU-Net在巨大成功中解决了图像细分任务的挑战。在NNU-Net的议程之后，在这项工作中，我们系统化并自动化了医疗对象检测的配置过程。由此产生的自配置方法NNDetection，在没有任何手动干预到任意医学检测问题的情况下适应本身，同时实现结果腹板或优于现有技术。我们展示了NNDetection对两台公共基准，亚当和Luna16的有效性，并提出了关于综合方法评估的公共数据集的进一步医疗对象检测任务。代码是https://github.com/mic-dkfz/nndetection。

尽管自动图像分析的重要性不断增加，但最近的元研究揭示了有关算法验证的主要缺陷。性能指标对于使用的自动算法的有意义，客观和透明的性能评估和验证尤其是关键，但是在使用特定的指标进行给定的图像分析任务时，对实际陷阱的关注相对较少。这些通常与（1）无视固有的度量属性，例如在存在类不平衡或小目标结构的情况下的行为，（2）无视固有的数据集属性，例如测试的非独立性案例和（3）无视指标应反映的实际生物医学领域的兴趣。该动态文档的目的是说明图像分析领域通常应用的性能指标的重要局限性。在这种情况下，它重点介绍了可以用作图像级分类，语义分割，实例分割或对象检测任务的生物医学图像分析问题。当前版本是基于由全球60多家机构的国际图像分析专家进行的关于指标的Delphi流程。

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.

我们将图形神经网络训练来自小工具N体模拟的光晕目录的神经网络，以执行宇宙学参数的无现场级别可能的推断。目录包含$ \ Lessim $ 5,000 HAROS带质量$ \ gtrsim 10^{10} 〜h^{ - 1} m_ \ odot $，定期卷为$（25〜H^{ - 1} {\ rm mpc}）{\ rm mpc}） ^3 $;目录中的每个光环都具有多种特性，例如位置，质量，速度，浓度和最大圆速度。我们的模型构建为置换，翻译和旋转的不变性，不施加最低限度的规模来提取信息，并能够以平均值来推断$ \ omega _ {\ rm m} $和$ \ sigma_8 $的值$ \ sim6 \％$的相对误差分别使用位置加上速度和位置加上质量。更重要的是，我们发现我们的模型非常强大：他们可以推断出使用数千个N-n-Body模拟的Halo目录进行测试时，使用五个不同的N-进行测试时，在使用Halo目录进行测试时，$ \ omega _ {\ rm m} $和$ \ sigma_8 $身体代码：算盘，Cubep $^3 $ M，Enzo，PKDGrav3和Ramses。令人惊讶的是，经过培训的模型推断$ \ omega _ {\ rm m} $在对数千个最先进的骆驼水力动力模拟进行测试时也可以使用，该模拟使用四个不同的代码和子网格物理实现。使用诸如浓度和最大循环速度之类的光环特性允许我们的模型提取更多信息，而牺牲了模型的鲁棒性。这可能会发生，因为不同的N体代码不会在与这些参数相对应的相关尺度上收敛。

背景：虽然卷积神经网络（CNN）实现了检测基于磁共振成像（MRI）扫描的阿尔茨海默病（AD）痴呆的高诊断准确性，但它们尚未应用于临床常规。这是一个重要原因是缺乏模型可理解性。最近开发的用于导出CNN相关性图的可视化方法可能有助于填补这种差距。我们调查了具有更高准确性的模型还依赖于先前知识预定义的判别脑区域。方法：我们培训了CNN，用于检测痴呆症和Amnestic认知障碍（MCI）患者的N = 663 T1加权MRI扫描的AD，并通过交叉验证和三个独立样本验证模型的准确性= 1655例。我们评估了相关评分和海马体积的关联，以验证这种方法的临床效用。为了提高模型可理解性，我们实现了3D CNN相关性图的交互式可视化。结果：跨三个独立数据集，组分离表现出广告痴呆症与控制的高精度（AUC $ \ GEQUQ $ 0.92）和MCI与控制的中等精度（AUC $ \约0.75美元）。相关性图表明海马萎缩被认为是广告检测的最具信息性因素，其其他皮质和皮质区域中的萎缩额外贡献。海马内的相关评分与海马体积高度相关（Pearson的r $ \大约$ -0.86，p <0.001）。结论：相关性地图突出了我们假设先验的地区的萎缩。这加强了CNN模型的可理解性，这些模型基于扫描和诊断标签以纯粹的数据驱动方式培训。

Data-driven Machine Learning has emerged as a promising approach for building accurate and robust statistical models from medical data, which is collected in huge volumes by modern healthcare systems. Existing medical data is not fully exploited by ML primarily because it sits in data silos and privacy concerns restrict access to this data. However, without access to sufficient data, ML will be prevented from reaching its full potential and, ultimately, from making the transition from research to clinical practice. This paper considers key factors contributing to this issue, explores how Federated Learning (FL) may provide a solution for the future of digital health and highlights the challenges and considerations that need to * Disclaimer: The opinions expressed herein are those of the authors and do not necessarily represent those of the institutions they are affiliated with, e.g. the U.S. Department of Health and Human Services or the National Institutes of Health. This is a pre-print version of https://www.nature.com/articles/s41746-020-00323-1 be addressed.

Making histopathology image classifiers robust to a wide range of real-world variability is a challenging task. Here, we describe a candidate deep learning solution for the Mitosis Domain Generalization Challenge 2022 (MIDOG) to address the problem of generalization for mitosis detection in images of hematoxylin-eosin-stained histology slides under high variability (scanner, tissue type and species variability). Our approach consists in training a rotation-invariant deep learning model using aggressive data augmentation with a training set enriched with hard negative examples and automatically selected negative examples from the unlabeled part of the challenge dataset. To optimize the performance of our models, we investigated a hard negative mining regime search procedure that lead us to train our best model using a subset of image patches representing 19.6% of our training partition of the challenge dataset. Our candidate model ensemble achieved a F1-score of .697 on the final test set after automated evaluation on the challenge platform, achieving the third best overall score in the MIDOG 2022 Challenge.