Counterfactual Reasoning with Probabilistic Graphical Models for Analyzing Socioecological Systems

Causal and counterfactual reasoning are emerging directions in data science that allow us to reason about hypothetical scenarios. This is particularly useful in domains where experimental data are usually not available. In the context of environmental and ecological sciences, causality enables us, for example, to predict how an ecosystem would respond to hypothetical interventions. A structural causal model is a class of probabilistic graphical models for causality, which, due to its intuitive nature, can be easily understood by experts in multiple fields. However, certain queries, called unidentifiable, cannot be calculated in an exact and precise manner. This paper proposes applying a novel and recent technique for bounding unidentifiable queries within the domain of socioecological systems. Our findings indicate that traditional statistical analysis, including probabilistic graphical models, can identify the influence between variables. However, such methods do not offer insights into the nature of the relationship, specifically whether it involves necessity or sufficiency. This is where counterfactual reasoning becomes valuable.

InferPy: Probabilistic Modeling with Deep Neural Networks Made Easy

InferPy is a Python package for probabilistic modeling with deep neural networks. InferPy defines a user-friendly API which trades-off model complexity with ease of use, unlike other libraries whose focus is on dealing with very general probabilistic models at the cost of having a more complex API. In particular, InferPy allows to define, learn and evaluate general hierarchical probabilistic models containing deep neural networks in a compact and simple way. InferPy is built on top of Tensorflow, Edward2 and Keras.

Probabilistic Models with Deep Neural Networks

Recent advances in statistical inference have significantly expanded the toolbox of probabilistic modeling. Historically, probabilistic modeling has been constrained to (i) very restricted model classes where exact or approximate probabilistic inference were feasible, and (ii) small or medium-sized data sets which fit within the main memory of the computer. However, developments in variational inference, a general form of approximate probabilistic inference originated in statistical physics, are allowing probabilistic modeling to overcome these restrictions: (i) Approximate probabilistic inference is now possible over a broad class of probabilistic models containing a large number of parameters, and (ii) scalable inference methods based on stochastic gradient descent and distributed computation engines allow to apply probabilistic modeling over massive data sets. One important practical consequence of these advances is the possibility to include deep neural networks within a probabilistic model to capture complex non-linear stochastic relationships between random variables. These advances in conjunction with the release of novel probabilistic modeling toolboxes have greatly expanded the scope of application of probabilistic models, and allow these models to take advantage of the recent strides made by the deep learning community. In this paper we review the main concepts, methods and tools needed to use deep neural networks within a probabilistic modeling framework.

AMIDST: a Java Toolbox for Scalable Probabilistic Machine Learning

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.