Diffusion MRI is the modality of choice to study alterations of white matter. In the past years, various works have used diffusion MRI for automatic classification of Alzheimers disease. However, the performances obtained with different approaches are difficult to compare because of variations in components such as input data, participant selection, image preprocessing, feature extraction, feature selection (FS) and cross-validation (CV) procedure. Moreover, these studies are also difficult to reproduce because these different components are not readily available. In a previous work (Samper-Gonzalez et al. 2018), we proposed an open-source framework for the reproducible evaluation of AD classification from T1-weighted (T1w) MRI and PET data. In the present paper, we extend this framework to diffusion MRI data. The framework comprises: tools to automatically convert ADNI data into the BIDS standard, pipelines for image preprocessing and feature extraction, baseline classifiers and a rigorous CV procedure. We demonstrate the use of the framework through assessing the influence of diffusion tensor imaging (DTI) metrics (fractional anisotropy - FA, mean diffusivity - MD), feature types, imaging modalities (diffusion MRI or T1w MRI), data imbalance and FS bias. First, voxel-wise features generally gave better performances than regional features. Secondly, FA and MD provided comparable results for voxel-wise features. Thirdly, T1w MRI performed better than diffusion MRI. Fourthly, we demonstrated that using non-nested validation of FS leads to unreliable and over-optimistic results. All the code is publicly available: general-purpose tools have been integrated into the Clinica software (www.clinica.run) and the paper-specific code is available at: https://gitlab.icm-institute.org/aramislab/AD-ML.

Predictive analytics is increasingly used to guide decision-making in many applications. However, in practice, we often have limited data on the true predictive task of interest, but copious data on a closely-related proxy predictive task. Practitioners often train predictive models on proxies since it achieves more accurate predictions. For example, e-commerce platforms use abundant customer click data (proxy) to make product recommendations rather than the relatively sparse customer purchase data (true outcome of interest); alternatively, hospitals often rely on medical risk scores trained on a different patient population (proxy) rather than their own patient population (true cohort of interest) to assign interventions. However, not accounting for the bias in the proxy can lead to sub-optimal decisions. Using real datasets, we find that this bias can often be captured by a sparse function of the features. Thus, we propose a novel two-step estimator that uses techniques from high-dimensional statistics to efficiently combine a large amount of proxy data and a small amount of true data. We prove upper bounds on the error of our proposed estimator and lower bounds on several heuristics commonly used by data scientists; in particular, our proposed estimator can achieve the same accuracy with exponentially less true data (in the number of features $d$). Our proof relies on a new tail inequality on the convergence of LASSO for approximately sparse vectors. Finally, we demonstrate the effectiveness of our approach on e-commerce and healthcare datasets; in both cases, we achieve significantly better predictive accuracy as well as managerial insights into the nature of the bias in the proxy data.

Machine learning systems increasingly depend on pipelines of multiple algorithms to provide high quality and well structured predictions. This paper argues interaction effects between clustering and prediction (e.g. classification, regression) algorithms can cause subtle adverse behaviors during cross-validation that may not be initially apparent. In particular, we focus on the problem of estimating the out-of-cluster (OOC) prediction loss given an approximate clustering with probabilistic error rate $p_0$. Traditional cross-validation techniques exhibit significant empirical bias in this setting, and the few attempts to estimate and correct for these effects are intractable on larger datasets. Further, no previous work has been able to characterize the conditions under which these empirical effects occur, and if they do, what properties they have. We precisely answer these questions by providing theoretical properties which hold in various settings, and prove that expected out-of-cluster loss behavior rapidly decays with even minor clustering errors. Fortunately, we are able to leverage these same properties to construct hypothesis tests and scalable estimators necessary for correcting the problem. Empirical results on benchmark datasets validate our theoretical results and demonstrate how scaling techniques provide solutions to new classes of problems.

Objective: A patient medical insurance coverage plays an essential role in determining the post-acute care (PAC) discharge disposition. The prior health insurance authorization process postpones the PAC discharge disposition, increases the inpatient length of stay, and effects patient health. Our study implements predictive analytics for the early prediction of the PAC discharge disposition to reduce the deferments caused by prior health insurance authorization, the inpatient length of stay and inpatient stay expenses. Methodology: We conducted a group discussion involving 25 patient care facilitators (PCFs) and two registered nurses (RNs) and retrieved 1600 patient data records from the initial nursing assessment and discharge notes to conduct a retrospective analysis of PAC discharge dispositions using predictive analytics. Results: The chi-squared automatic interaction detector (CHAID) algorithm enabled the early prediction of the PAC discharge disposition, accelerated the prior health insurance process, decreased the inpatient length of stay by an average of 22.22%, and reduced inpatient stay expenses by \$1,974 for state government hospitals, \$2,346 for non-profit hospitals and \$1,798 for for-profit hospitals per day. The CHAID algorithm produced an overall accuracy of 84.16% and an area under the receiver operating characteristic (ROC) curve value of 0.81. Conclusion: The early prediction of PAC discharge dispositions can condense the PAC deferment caused by the prior health insurance authorization process and simultaneously minimize the inpatient length of stay and related expenses incurred by the hospital.

Deep learning provides a powerful tool for machine perception when the observations resemble the training data. However, real-world robotic systems must react intelligently to their observations even in unexpected circumstances. This requires a system to reason about its own uncertainty given unfamiliar, out-of-distribution observations. Approximate Bayesian approaches are commonly used to estimate uncertainty for neural network predictions, but can struggle with out-of-distribution observations. Generative models can in principle detect out-of-distribution observations as those with a low estimated density. However, the mere presence of an out-of-distribution input does not by itself indicate an unsafe situation. In this paper, we present a method for uncertainty-aware robotic perception that combines generative modeling and model uncertainty to cope with uncertainty stemming from out-of-distribution states. Our method estimates an uncertainty measure about the model's prediction, taking into account an explicit (generative) model of the observation distribution to handle out-of-distribution inputs. This is accomplished by probabilistically projecting observations onto the training distribution, such that out-of-distribution inputs map to uncertain in-distribution observations, which in turn produce uncertain task-related predictions, but only if task-relevant parts of the image change. We evaluate our method on an action-conditioned collision prediction task with both simulated and real data, and demonstrate that our method of projecting out-of-distribution observations improves the performance of four standard Bayesian and non-Bayesian neural network approaches, offering more favorable trade-offs between the proportion of time a robot can remain autonomous and the proportion of impending crashes successfully avoided.

Building open domain conversational systems that allow users to have engaging conversations on topics of their choice is a challenging task. Alexa Prize was launched in 2016 to tackle the problem of achieving natural, sustained, coherent and engaging open-domain dialogs. In the second iteration of the competition in 2018, university teams advanced the state of the art by using context in dialog models, leveraging knowledge graphs for language understanding, handling complex utterances, building statistical and hierarchical dialog managers, and leveraging model-driven signals from user responses. The 2018 competition also included the provision of a suite of tools and models to the competitors including the CoBot (conversational bot) toolkit, topic and dialog act detection models, conversation evaluators, and a sensitive content detection model so that the competing teams could focus on building knowledge-rich, coherent and engaging multi-turn dialog systems. This paper outlines the advances developed by the university teams as well as the Alexa Prize team to achieve the common goal of advancing the science of Conversational AI. We address several key open-ended problems such as conversational speech recognition, open domain natural language understanding, commonsense reasoning, statistical dialog management and dialog evaluation. These collaborative efforts have driven improved experiences by Alexa users to an average rating of 3.61, median duration of 2 mins 18 seconds, and average turns to 14.6, increases of 14%, 92%, 54% respectively since the launch of the 2018 competition. For conversational speech recognition, we have improved our relative Word Error Rate by 55% and our relative Entity Error Rate by 34% since the launch of the Alexa Prize. Socialbots improved in quality significantly more rapidly in 2018, in part due to the release of the CoBot toolkit, with new entrants attaining an average rating of 3.35 just 1 week into the semifinals, compared to 9 weeks in the 2017 competition.

A common challenge in estimating parameters of probability density functions is the intractability of the normalizing constant. While in such cases maximum likelihood estimation may be implemented using numerical integration, the approach becomes computationally intensive. The score matching method of Hyv\"arinen [2005] avoids direct calculation of the normalizing constant and yields closed-form estimates for exponential families of continuous distributions over $\mathbb{R}^m$. Hyv\"arinen [2007] extended the approach to distributions supported on the non-negative orthant, $\mathbb{R}_+^m$. In this paper, we give a generalized form of score matching for non-negative data that improves estimation efficiency. As an example, we consider a general class of pairwise interaction models. Addressing an overlooked inexistence problem, we generalize the regularized score matching method of Lin et al. [2016] and improve its theoretical guarantees for non-negative Gaussian graphical models.

A central machine is interested in estimating the underlying structure of a sparse Gaussian Graphical Model (GGM) from datasets distributed across multiple local machines. The local machines can communicate with the central machine through a wireless multiple access channel. In this paper, we are interested in designing effective strategies where reliable learning is feasible under power and bandwidth limitations. Two approaches are proposed: Signs and Uncoded methods. In Signs method, the local machines quantize their data into binary vectors and an optimal channel coding scheme is used to reliably send the vectors to the central machine where the structure is learned from the received data. In Uncoded method, data symbols are scaled and transmitted through the channel. The central machine uses the received noisy symbols to recover the structure. Theoretical results show that both methods can recover the structure with high probability for large enough sample size. Experimental results indicate the superiority of Signs method over Uncoded method under several circumstances.

Data extracted from software repositories is used intensively in Software Engineering research, for example, to predict defects in source code. In our research in this area, with data from open source projects as well as an industrial partner, we noticed several shortcomings of conventional data mining approaches for classification problems: (1) Domain experts' acceptance is of critical importance, and domain experts can provide valuable input, but it is hard to use this feedback. (2) The evaluation of the model is not a simple matter of calculating AUC or accuracy. Instead, there are multiple objectives of varying importance, but their importance cannot be easily quantified. Furthermore, the performance of the model cannot be evaluated on a per-instance level in our case, because it shares aspects with the set cover problem. To overcome these problems, we take a holistic approach and develop a rule mining system that simplifies iterative feedback from domain experts and can easily incorporate the domain-specific evaluation needs. A central part of the system is a novel multi-objective anytime rule mining algorithm. The algorithm is based on the GRASP-PR meta-heuristic but extends it with ideas from several other approaches. We successfully applied the system in the industrial context. In the current article, we focus on the description of the algorithm and the concepts of the system. We provide an implementation of the system for reuse.

Machine learning (ML), artificial intelligence (AI) and other modern statistical methods are providing new opportunities to operationalize previously untapped and rapidly growing sources of data for patient benefit. Whilst there is a lot of promising research currently being undertaken, the literature as a whole lacks: transparency; clear reporting to facilitate replicability; exploration for potential ethical concerns; and, clear demonstrations of effectiveness. There are many reasons for why these issues exist, but one of the most important that we provide a preliminary solution for here is the current lack of ML/AI- specific best practice guidance. Although there is no consensus on what best practice looks in this field, we believe that interdisciplinary groups pursuing research and impact projects in the ML/AI for health domain would benefit from answering a series of questions based on the important issues that exist when undertaking work of this nature. Here we present 20 questions that span the entire project life cycle, from inception, data analysis, and model evaluation, to implementation, as a means to facilitate project planning and post-hoc (structured) independent evaluation. By beginning to answer these questions in different settings, we can start to understand what constitutes a good answer, and we expect that the resulting discussion will be central to developing an international consensus framework for transparent, replicable, ethical and effective research in artificial intelligence (AI-TREE) for health.