Cycle-based Cluster Variational Method for Direct and Inverse Inference

We elaborate on the idea that loop corrections to belief propagation could be dealt with in a systematic way on pairwise Markov random fields, by using the elements of a cycle basis to define region in a generalized belief propagation setting. The region graph is specified in such a way as to avoid dual loops as much as possible, by discarding redundant Lagrange multipliers, in order to facilitate the convergence, while avoiding instabilities associated to minimal factor graph construction. We end up with a two-level algorithm, where a belief propagation algorithm is run alternatively at the level of each cycle and at the inter-region level. The inverse problem of finding the couplings of a Markov random field from empirical covariances can be addressed region wise. It turns out that this can be done efficiently in particular in the Ising context, where fixed point equations can be derived along with a one-parameter log likelihood function to minimize. Numerical experiments confirm the effectiveness of these considerations both for the direct and inverse MRF inference.Comment: 47 pages, 16 figure

Pairwise MRF Calibration by Perturbation of the Bethe Reference Point

We investigate different ways of generating approximate solutions to the pairwise Markov random field (MRF) selection problem. We focus mainly on the inverse Ising problem, but discuss also the somewhat related inverse Gaussian problem because both types of MRF are suitable for inference tasks with the belief propagation algorithm (BP) under certain conditions. Our approach consists in to take a Bethe mean-field solution obtained with a maximum spanning tree (MST) of pairwise mutual information, referred to as the \emph{Bethe reference point}, for further perturbation procedures. We consider three different ways following this idea: in the first one, we select and calibrate iteratively the optimal links to be added starting from the Bethe reference point; the second one is based on the observation that the natural gradient can be computed analytically at the Bethe point; in the third one, assuming no local field and using low temperature expansion we develop a dual loop joint model based on a well chosen fundamental cycle basis. We indeed identify a subclass of planar models, which we refer to as \emph{Bethe-dual graph models}, having possibly many loops, but characterized by a singly connected dual factor graph, for which the partition function and the linear response can be computed exactly in respectively O(N) and $O(N^2)$ operations, thanks to a dual weight propagation (DWP) message passing procedure that we set up. When restricted to this subclass of models, the inverse Ising problem being convex, becomes tractable at any temperature. Experimental tests on various datasets with refined $L_0$ or $L_1$ regularization procedures indicate that these approaches may be competitive and useful alternatives to existing ones.Comment: 54 pages, 8 figure. section 5 and refs added in V