The Gibbs sampler is a particularly popular Markov chain used for learning and inference problems in Graphical Models (GMs). These tasks are computationally intractable in general, and the Gibbs sampler often suffers from slow mixing. In this paper, we study the Swendsen-Wang dynamics which is a more sophisticated Markov chain designed to overcome bottlenecks that impede the Gibbs sampler. We prove O(\log n) mixing time for attractive binary pairwise GMs (i.e., ferromagnetic Ising models) on stochastic partitioned graphs having n vertices, under some mild conditions, including low temperature regions where the Gibbs sampler provably mixes exponentially slow. Our experiments also confirm that the Swendsen-Wang sampler significantly outperforms the Gibbs sampler when they are used for learning parameters of attractive GMs.

A typical problem in causal modeling is the instability of model structure learning, i.e., small changes in finite data can result in completely different optimal models. The present work introduces a novel causal modeling algorithm for longitudinal data, that is robust for finite samples based on recent advances in stability selection using subsampling and selection algorithms. Our approach uses exploratory search but allows incorporation of prior knowledge, e.g., the absence of a particular causal relationship between two specific variables. We represent causal relationships using structural equation models. Models are scored along two objectives: the model fit and the model complexity. Since both objectives are often conflicting we apply a multi-objective evolutionary algorithm to search for Pareto optimal models. To handle the instability of small finite data samples, we repeatedly subsample the data and select those substructures (from the optimal models) that are both stable and parsimonious. These substructures can be visualized through a causal graph. Our more exploratory approach achieves at least comparable performance as, but often a significant improvement over state-of-the-art alternative approaches on a simulated data set with a known ground truth. We also present the results of our method on three real-world longitudinal data sets on chronic fatigue syndrome, Alzheimer disease, and chronic kidney disease. The findings obtained with our approach are generally in line with results from more hypothesis-driven analyses in earlier studies and suggest some novel relationships that deserve further research.

The AMIDST Toolbox is a software for scalable probabilistic machine learning with a spe- cial focus on (massive) streaming data. The toolbox supports a flexible modeling language based on probabilistic graphical models with latent variables and temporal dependencies. The specified models can be learnt from large data sets using parallel or distributed implementa- tions of Bayesian learning algorithms for either streaming or batch data. These algorithms are based on a flexible variational message passing scheme, which supports discrete and continu- ous variables from a wide range of probability distributions. AMIDST also leverages existing functionality and algorithms by interfacing to software tools such as Flink, Spark, MOA, Weka, R and HUGIN. AMIDST is an open source toolbox written in Java and available at http://www.amidsttoolbox.com under the Apache Software License version 2.0.

In this tutorial we will begin by laying out a problem and then proceed to show a simple solution to it using a Machine Learning technique called a Naive Bayes Classifier. This tutorial requires a little bit of programming and statistics experience, but no prior Machine Learning experience is required. You work as a software engineer at a company which provides email services to millions of people. Lately, spam has a been a major problem and has caused your customers to leave. Your current spam filter only filters out emails that have been previously marked as spam by your customers.

Traditional Linear Genetic Programming (LGP) algorithms are based only on the selection mechanism to guide the search. Genetic operators combine or mutate random portions of the individuals, without knowing if the result will lead to a fitter individual. Probabilistic Model Building Genetic Programming (PMB-GP) methods were proposed to overcome this issue through a probability model that captures the structure of the fit individuals and use it to sample new individuals. This work proposes the use of LGP with a Stochastic Context-Free Grammar (SCFG), that has a probability distribution that is updated according to selected individuals. We proposed a method for adapting the grammar into the linear representation of LGP. Tests performed with the proposed probabilistic method, and with two hybrid approaches, on several symbolic regression benchmark problems show that the results are statistically better than the obtained by the traditional LGP.

The Support Vector Machine (SVM) is a powerful and widely used classification algorithm. Its performance is well known to be impacted by a tuning parameter which is frequently selected by cross-validation. This paper uses the Karush-Kuhn-Tucker conditions to provide rigorous mathematical proof for new insights into the behavior of SVM in the large and small tuning parameter regimes. These insights provide perhaps unexpected relationships between SVM and naive Bayes and maximal data piling directions. We explore how characteristics of the training data affect the behavior of SVM in many cases including: balanced vs. unbalanced classes, low vs. high dimension, separable vs. non-separable data. These results present a simple explanation of SVM's behavior as a function of the tuning parameter. We also elaborate on the geometry of complete data piling directions in high dimensional space. The results proved in this paper suggest important implications for tuning SVM with cross-validation.

We extend Stochastic Gradient Variational Bayes to perform posterior inference for the weights of Stick-Breaking processes. This development allows us to define a Stick-Breaking Variational Autoencoder (SB-VAE), a Bayesian nonparametric version of the variational autoencoder that has a latent representation with stochastic dimensionality. We experimentally demonstrate that the SB-VAE, and a semi-supervised variant, learn highly discriminative latent representations that often outperform the Gaussian VAE's.

We present an algorithm for building probabilistic rule lists that is two orders of magnitude faster than previous work. Rule list algorithms are competitors for decision tree algorithms. They are associative classifiers, in that they are built from pre-mined association rules. They have a logical structure that is a sequence of IF-THEN rules, identical to a decision list or one-sided decision tree. Instead of using greedy splitting and pruning like decision tree algorithms, we fully optimize over rule lists, striking a practical balance between accuracy, interpretability, and computational speed. The algorithm presented here uses a mixture of theoretical bounds (tight enough to have practical implications as a screening or bounding procedure), computational reuse, and highly tuned language libraries to achieve computational efficiency. Currently, for many practical problems, this method achieves better accuracy and sparsity than decision trees; further, in many cases, the computational time is practical and often less than that of decision trees. The result is a probabilistic classifier (which estimates P(y = 1|x) for each x) that optimizes the posterior of a Bayesian hierarchical model over rule lists.

Online knowledge repositories typically rely on their users or dedicated editors to evaluate the reliability of their content. These evaluations can be viewed as noisy measurements of both information reliability and information source trustworthiness. Can we leverage these noisy evaluations, often biased, to distill a robust, unbiased and interpretable measure of both notions? In this paper, we argue that the temporal traces left by these noisy evaluations give cues on the reliability of the information and the trustworthiness of the sources. Then, we propose a temporal point process modeling framework that links these temporal traces to robust, unbiased and interpretable notions of information reliability and source trustworthiness. Furthermore, we develop an efficient convex optimization procedure to learn the parameters of the model from historical traces. Experiments on real-world data gathered from Wikipedia and Stack Overflow show that our modeling framework accurately predicts evaluation events, provides an interpretable measure of information reliability and source trustworthiness, and yields interesting insights about real-world events.

The intersection of causal inference and machine learning is a rapidly advancing field. We propose a new approach, the method of direct estimation, that draws on both traditions in order to obtain nonparametric estimates of treatment effects. The approach focuses on estimating the effect of fluctuations in a treatment variable on an outcome. A tensor-spline implementation enables rich interactions between functional bases allowing for the approach to capture treatment/covariate interactions. We show how new innovations in Bayesian sparse modeling readily handle the proposed framework, and then document its performance in simulation and applied examples. Furthermore we show how the method of direct estimation can easily extend to structural estimators commonly used in a variety of disciplines, like instrumental variables, mediation analysis, and sequential g-estimation.