Probabilistic principal component analysis (PPCA) seeks a low dimensional representation of a data set in the presence of independent spherical Gaussian noise. The maximum likelihood solution for the model is an eigenvalue problem on the sample covariance matrix. In this paper we consider the situation where the data variance is already partially explained by other factors, for example sparse conditional dependencies between the covariates, or temporal correlations leaving some residual variance. We decompose the residual variance into its components through a generalised eigenvalue problem, which we call residual component analysis (RCA). We explore a range of new algorithms that arise from the framework, including one that factorises the covariance of a Gaussian density into a low-rank and a sparse-inverse component. We illustrate the ideas on the recovery of a protein-signaling network, a gene expression time-series data set and the recovery of the human skeleton from motion capture 3-D cloud data.

This paper revisits the problem of analyzing multiple ratings given by different judges. Different from previous work that focuses on distilling the true labels from noisy crowdsourcing ratings, we emphasize gaining diagnostic insights into our in-house well-trained judges. We generalize the well-known DawidSkene model (Dawid & Skene, 1979) to a spectrum of probabilistic models under the same "TrueLabel + Confusion" paradigm, and show that our proposed hierarchical Bayesian model, called HybridConfusion, consistently outperforms DawidSkene on both synthetic and real-world data sets.

Online sequence prediction is the problem of predicting the next element of a sequence given previous elements. This problem has been extensively studied in the context of individual sequence prediction, where no prior assumptions are made on the origin of the sequence. Individual sequence prediction algorithms work quite well for long sequences, where the algorithm has enough time to learn the temporal structure of the sequence. However, they might give poor predictions for short sequences. A possible remedy is to rely on the general model of prediction with expert advice, where the learner has access to a set of $r$ experts, each of which makes its own predictions on the sequence. It is well known that it is possible to predict almost as well as the best expert if the sequence length is order of $\log(r)$. But, without firm prior knowledge on the problem, it is not clear how to choose a small set of {\em good} experts. In this paper we describe and analyze a new algorithm that learns a good set of experts using a training set of previously observed sequences. We demonstrate the merits of our approach by applying it on the task of click prediction on the web.

In this paper, we propose a simple, versatile model for learning the structure and parameters of multivariate distributions from a data set. Learning a Markov network from a given data set is not a simple problem, because Markov networks rigorously represent Markov properties, and this rigor imposes complex constraints on the design of the networks. Our proposed model removes these constraints, acquiring important aspects from the information geometry. The proposed parameter- and structure-learning algorithms are simple to execute as they are based solely on local computation at each node. Experiments demonstrate that our algorithms work appropriately.

This paper explores unsupervised learning of parsing models along two directions. First, which models are identifiable from infinite data? We use a general technique for numerically checking identifiability based on the rank of a Jacobian matrix, and apply it to several standard constituency and dependency parsing models. Second, for identifiable models, how do we estimate the parameters efficiently? EM suffers from local optima, while recent work using spectral methods cannot be directly applied since the topology of the parse tree varies across sentences. We develop a strategy, unmixing, which deals with this additional complexity for restricted classes of parsing models.

Chordal graphs can be used to encode dependency models that are representable by both directed acyclic and undirected graphs. This paper discusses a very simple and efficient algorithm to learn the chordal structure of a probabilistic model from data. The algorithm is a greedy hill-climbing search algorithm that uses the inclusion boundary neighborhood over chordal graphs. In the limit of a large sample size and under appropriate hypotheses on the scoring criterion, we prove that the algorithm will find a structure that is inclusion-optimal when the dependency model of the data-generating distribution can be represented exactly by an undirected graph. The algorithm is evaluated on simulated datasets.

In this paper, we consider planning in stochastic shortest path (SSP) problems, a subclass of Markov Decision Problems (MDP). We focus on medium-size problems whose state space can be fully enumerated. This problem has numerous important applications, such as navigation and planning under uncertainty. We propose a new approach for constructing a multi-level hierarchy of progressively simpler abstractions of the original problem. Once computed, the hierarchy can be used to speed up planning by first finding a policy for the most abstract level and then recursively refining it into a solution to the original problem. This approach is fully automated and delivers a speed-up of two orders of magnitude over a state-of-the-art MDP solver on sample problems while returning near-optimal solutions. We also prove theoretical bounds on the loss of solution optimality resulting from the use of abstractions.

The paper introduces AND/OR importance sampling for probabilistic graphical models. In contrast to importance sampling, AND/OR importance sampling caches samples in the AND/OR space and then extracts a new sample mean from the stored samples. We prove that AND/OR importance sampling may have lower variance than importance sampling; thereby providing a theoretical justification for preferring it over importance sampling. Our empirical evaluation demonstrates that AND/OR importance sampling is far more accurate than importance sampling in many cases.

It is well-known that inference in graphical models is hard in the worst case, but tractable for models with bounded treewidth. We ask whether treewidth is the only structural criterion of the underlying graph that enables tractable inference. In other words, is there some class of structures with unbounded treewidth in which inference is tractable? Subject to a combinatorial hypothesis due to Robertson et al. (1994), we show that low treewidth is indeed the only structural restriction that can ensure tractability. Thus, even for the "best case" graph structure, there is no inference algorithm with complexity polynomial in the treewidth.

Variational Bayesian inference and (collapsed) Gibbs sampling are the two important classes of inference algorithms for Bayesian networks. Both have their advantages and disadvantages: collapsed Gibbs sampling is unbiased but is also inefficient for large count values and requires averaging over many samples to reduce variance. On the other hand, variational Bayesian inference is efficient and accurate for large count values but suffers from bias for small counts. We propose a hybrid algorithm that combines the best of both worlds: it samples very small counts and applies variational updates to large counts. This hybridization is shown to significantly improve testset perplexity relative to variational inference at no computational cost.