Bart Jacobs

Bart Jacobs, Dario Stein

The concept of updating a probability distribution in the light of new evidence lies at the heart of statistics and machine learning. Pearl's and Jeffrey's rule are two natural update mechanisms which lead to different outcomes, yet the similarities and differences remain mysterious. This paper clarifies their relationship in several ways: via separate descriptions of the two update mechanisms in terms of probabilistic programs and sampling semantics, and via different notions of likelihood (for Pearl and for Jeffrey). Moreover, it is shown that Jeffrey's update rule arises via variational inference. In terms of categorical probability theory, this amounts to an analysis of the situation in terms of the behaviour of the multiset functor, extended to the Kleisli category of the distribution monad.

Bart Jacobs, Aleks Kissinger, Fabio Zanasi

Extracting causal relationships from observed correlations is a growing area in probabilistic reasoning, originating with the seminal work of Pearl and others from the early 1990s. This paper develops a new, categorically oriented view based on a clear distinction between syntax (string diagrams) and semantics (stochastic matrices), connected via interpretations as structure-preserving functors. A key notion in the identification of causal effects is that of an intervention, whereby a variable is forcefully set to a particular value independent of any prior propensities. We represent the effect of such an intervention as an endofunctor which performs `string diagram surgery' within the syntactic category of string diagrams. This diagram surgery in turn yields a new, interventional distribution via the interpretation functor. While in general there is no way to compute interventional distributions purely from observed data, we show that this is possible in certain special cases using a calculational tool called comb disintegration. We demonstrate the use of this technique on a well-known toy example, where we predict the causal effect of smoking on cancer in the presence of a confounding common cause. After developing this specific example, we show this technique provides simple sufficient conditions for computing interventions which apply to a wide variety of situations considered in the causal inference literature.

Bart Jacobs

Parameter learning is the technique for obtaining the probabilistic parameters in conditional probability tables in Bayesian networks from tables with (observed) data --- where it is assumed that the underlying graphical structure is known. There are basically two ways of doing so, referred to as maximal likelihood estimation (MLE) and as Bayesian learning. This paper provides a categorical analysis of these two techniques and describes them in terms of basic properties of the multiset monad M, the distribution monad D and the Giry monad G. In essence, learning is about the reltionships between multisets (used for counting) on the one hand and probability distributions on the other. These relationsips will be described as suitable natural transformations.

Bart Jacobs

Evidence in probabilistic reasoning may be 'hard' or 'soft', that is, it may be of yes/no form, or it may involve a strength of belief, in the unit interval [0, 1]. Reasoning with soft, [0, 1]-valued evidence is important in many situations but may lead to different, confusing interpretations. This paper intends to bring more mathematical and conceptual clarity to the field by shifting the existing focus from specification of soft evidence to accomodation of soft evidence. There are two main approaches, known as Jeffrey's rule and Pearl's method; they give different outcomes on soft evidence. This paper argues that they can be understood as correction and as improvement. It describes these two approaches as different ways of updating with soft evidence, highlighting their differences, similarities and applications. This account is based on a novel channel-based approach to Bayesian probability. Proper understanding of these two update mechanisms is highly relevant for inference, decision tools and probabilistic programming languages.

Bart Jacobs

This paper describes a new algorithm for exact Bayesian inference that is based on a recently proposed compositional semantics of Bayesian networks in terms of channels. The paper concentrates on the ideas behind this algorithm, involving a linearisation (`stretching') of the Bayesian network, followed by a combination of forward state transformation and backward predicate transformation, while evidence is accumulated along the way. The performance of a prototype implementation of the algorithm in Python is briefly compared to a standard implementation (pgmpy): first results show competitive performance.

Bart Jacobs, Fabio Zanasi

This chapter offers an accessible introduction to the channel-based approach to Bayesian probability theory. This framework rests on algebraic and logical foundations, inspired by the methodologies of programming language semantics. It offers a uniform, structured and expressive language for describing Bayesian phenomena in terms of familiar programming concepts, like channel, predicate transformation and state transformation. The introduction also covers inference in Bayesian networks, which will be modelled by a suitable calculus of string diagrams.

Kenta Cho, Bart Jacobs

The notions of disintegration and Bayesian inversion are fundamental in conditional probability theory. They produce channels, as conditional probabilities, from a joint state, or from an already given channel (in opposite direction). These notions exist in the literature, in concrete situations, but are presented here in abstract graphical formulations. The resulting abstract descriptions are used for proving basic results in conditional probability theory. The existence of disintegration and Bayesian inversion is discussed for discrete probability, and also for measure-theoretic probability --- via standard Borel spaces and via likelihoods. Finally, the usefulness of disintegration and Bayesian inversion is illustrated in several examples.