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Artificial Neural Networks (ANNs), including fully-connected networks and transformers, are highly flexible and powerful function approximators, widely applied in fields like computer vision and natural language processing. However, their inability to inherently respect causal structures can limit their robustness, making them vulnerable to covariate shift and difficult to interpret/explain. This poses significant challenges for their reliability in real-world applications. In this paper, we introduce Causal Fully-Connected Neural Networks (CFCNs) and Causal Transformers (CaTs), two general model families designed to operate under predefined causal constraints, as specified by a Directed Acyclic Graph (DAG). These models retain the powerful function approximation abilities of traditional neural networks while adhering to the underlying structural constraints, improving robustness, reliability, and interpretability at inference time. This approach opens new avenues for deploying neural networks in more demanding, real-world scenarios where robustness and explainability is critical.

psifx is a plug-and-play multi-modal feature extraction toolkit, aiming to facilitate and democratize the use of state-of-the-art machine learning techniques for human sciences research. It is motivated by a need (a) to automate and standardize data annotation processes, otherwise involving expensive, lengthy, and inconsistent human labor, such as the transcription or coding of behavior changes from audio and video sources; (b) to develop and distribute open-source community-driven psychology research software; and (c) to enable large-scale access and ease of use to non-expert users. The framework contains an array of tools for tasks, such as speaker diarization, closed-caption transcription and translation from audio, as well as body, hand, and facial pose estimation and gaze tracking from video. The package has been designed with a modular and task-oriented approach, enabling the community to add or update new tools easily. We strongly hope that this package will provide psychologists a simple and practical solution for efficiently a range of audio, linguistic, and visual features from audio and video, thereby creating new opportunities for in-depth study of real-time behavioral phenomena.

Causal inference is a crucial goal of science, enabling researchers to arrive at meaningful conclusions regarding the predictions of hypothetical interventions using observational data. Path models, Structural Equation Models (SEMs), and, more generally, Directed Acyclic Graphs (DAGs), provide a means to unambiguously specify assumptions regarding the causal structure underlying a phenomenon. Unlike DAGs, which make very few assumptions about the functional and parametric form, SEM assumes linearity. This can result in functional misspecification which prevents researchers from undertaking reliable effect size estimation. In contrast, we propose Super Learner Equation Modeling, a path modeling technique integrating machine learning Super Learner ensembles. We empirically demonstrate its ability to provide consistent and unbiased estimates of causal effects, its competitive performance for linear models when compared with SEM, and highlight its superiority over SEM when dealing with non-linear relationships. We provide open-source code, and a tutorial notebook with example usage, accentuating the easy-to-use nature of the method.

Normality, in the colloquial sense, has historically been considered an aspirational trait, synonymous with ideality. The arithmetic average and, by extension, statistics including linear regression coefficients, have often been used to characterize normality, and are often used as a way to summarize samples and identify outliers. We provide intuition behind the behavior of such statistics in high dimensions, and demonstrate that even for datasets with a relatively low number of dimensions, data start to exhibit a number of peculiarities which become severe as the number of dimensions increases. Whilst our main goal is to familiarize researchers with these peculiarities, we also show that normality can be better characterized with `typicality', an information theoretic concept relating to entropy. An application of typicality to both synthetic and real-world data concerning political values reveals that in multi-dimensional space, to be `normal' is actually to be atypical. We briefly explore the ramifications for outlier detection, demonstrating how typicality, in contrast with the popular Mahalanobis distance, represents a viable method for outlier detection.

Causal identification is at the core of the causal inference literature, where complete algorithms have been proposed to identify causal queries of interest. The validity of these algorithms hinges on the restrictive assumption of having access to a correctly specified causal structure. In this work, we study the setting where a probabilistic model of the causal structure is available. Specifically, the edges in a causal graph exist with uncertainties which may, for example, represent degree of belief from domain experts. Alternatively, the uncertainty about an edge may reflect the confidence of a particular statistical test. The question that naturally arises in this setting is: Given such a probabilistic graph and a specific causal effect of interest, what is the subgraph which has the highest plausibility and for which the causal effect is identifiable? We show that answering this question reduces to solving an NP-complete combinatorial optimization problem which we call the edge ID problem. We propose efficient algorithms to approximate this problem and evaluate them against both real-world networks and randomly generated graphs., Comment: 27 pages, 9 figures, NeurIPS 2023 conference, causal identification, causal discovery, probabilistic models

Causality is a fundamental part of the scientific endeavour to understand the world. Unfortunately, causality is still taboo in much of psychology and social science. Motivated by a growing number of recommendations for the importance of adopting causal approaches to research, we reformulate the typical approach to research in psychology to harmonize inevitably causal theories with the rest of the research pipeline. We present a new process which begins with the incorporation of techniques from the confluence of causal discovery and machine learning for the development, validation, and transparent formal specification of theories. We then present methods for reducing the complexity of the fully specified theoretical model into the fundamental submodel relevant to a given target hypothesis. From here, we establish whether or not the quantity of interest is estimable from the data, and if so, propose the use of semi-parametric machine learning methods for the estimation of causal effects. The overall goal is the presentation of a new research pipeline which can (a) facilitate scientific inquiry compatible with the desire to test causal theories (b) encourage transparent representation of our theories as unambiguous mathematical objects, (c) to tie our statistical models to specific attributes of the theory, thus reducing under-specification problems frequently resulting from the theory-to-model gap, and (d) to yield results and estimates which are causally meaningful and reproducible. The process is demonstrated through didactic examples with real-world data, and we conclude with a summary and discussion of limitations.

Data collection and research methodology represents a critical part of the research pipeline. On the one hand, it is important that we collect data in a way that maximises the validity of what we are measuring, which may involve the use of long scales with many items. On the other hand, collecting a large number of items across multiple scales results in participant fatigue, and expensive and time consuming data collection. It is therefore important that we use the available resources optimally. In this work, we consider how a consideration for theory and the associated causal/structural model can help us to streamline data collection procedures by not wasting time collecting data for variables which are not causally critical for subsequent analysis. This not only saves time and enables us to redirect resources to attend to other variables which are more important, but also increases research transparency and the reliability of theory testing. In order to achieve this streamlined data collection, we leverage structural models, and Markov conditional independency structures implicit in these models to identify the substructures which are critical for answering a particular research question. In this work, we review the relevant concepts and present a number of didactic examples with the hope that psychologists can use these techniques to streamline their data collection process without invalidating the subsequent analysis. We provide a number of simulation results to demonstrate the limited analytical impact of this streamlining.

Machine Learning explainability techniques have been proposed as a means of `explaining' or interrogating a model in order to understand why a particular decision or prediction has been made. Such an ability is especially important at a time when machine learning is being used to automate decision processes which concern sensitive factors and legal outcomes. Indeed, it is even a requirement according to EU law. Furthermore, researchers concerned with imposing overly restrictive functional form (e.g., as would be the case in a linear regression) may be motivated to use machine learning algorithms in conjunction with explainability techniques, as part of exploratory research, with the goal of identifying important variables which are associated with an outcome of interest. For example, epidemiologists might be interested in identifying `risk factors' - i.e. factors which affect recovery from disease - by using random forests and assessing variable relevance using importance measures. However, and as we demonstrate, machine learning algorithms are not as flexible as they might seem, and are instead incredibly sensitive to the underling causal structure in the data. The consequences of this are that predictors which are, in fact, critical to a causal system and highly correlated with the outcome, may nonetheless be deemed by explainability techniques to be unrelated/unimportant/unpredictive of the outcome. Rather than this being a limitation of explainability techniques per se, we show that it is rather a consequence of the mathematical implications of regression, and the interaction of these implications with the associated conditional independencies of the underlying causal structure. We provide some alternative recommendations for researchers wanting to explore the data for important variables.

Parameter estimation in empirical fields is usually undertaken using parametric models, and such models readily facilitate statistical inference. Unfortunately, they are unlikely to be sufficiently flexible to be able to adequately model real-world phenomena, and may yield biased estimates. Conversely, non-parametric approaches are flexible but do not readily facilitate statistical inference and may still exhibit residual bias. We explore the potential for Influence Functions (IFs) to (a) improve initial estimators without needing more data (b) increase model robustness and (c) facilitate statistical inference. We begin with a broad introduction to IFs, and propose a neural network method 'MultiNet', which seeks the diversity of an ensemble using a single architecture. We also introduce variants on the IF update step which we call 'MultiStep', and provide a comprehensive evaluation of different approaches. The improvements are found to be dataset dependent, indicating an interaction between the methods used and nature of the data generating process. Our experiments highlight the need for practitioners to check the consistency of their findings, potentially by undertaking multiple analyses with different combinations of estimators. We also show that it is possible to improve existing neural networks for `free', without needing more data, and without needing to retrain them.

An important goal across most scientific fields is the discovery of causal structures underling a set of observations. Unfortunately, causal discovery methods which are based on correlation or mutual information can often fail to identify causal links in systems which exhibit dynamic relationships. Such dynamic systems (including the famous coupled logistic map) exhibit `mirage' correlations which appear and disappear depending on the observation window. This means not only that correlation is not causation but, perhaps counter-intuitively, that causation may occur without correlation. In this paper we describe Neural Shadow-Mapping, a neural network based method which embeds high-dimensional video data into a low-dimensional shadow representation, for subsequent estimation of causal links. We demonstrate its performance at discovering causal links from video-representations of dynamic systems.

Disentangled representations support a range of downstream tasks including causal reasoning, generative modeling, and fair machine learning. Unfortunately, disentanglement has been shown to be impossible without the incorporation of supervision or inductive bias. Given that supervision is often expensive or infeasible to acquire, we choose to incorporate structural inductive bias and present an unsupervised, deep State-Space-Model for Video Disentanglement (VDSM). The model disentangles latent time-varying and dynamic factors via the incorporation of hierarchical structure with a dynamic prior and a Mixture of Experts decoder. VDSM learns separate disentangled representations for the identity of the object or person in the video, and for the action being performed. We evaluate VDSM across a range of qualitative and quantitative tasks including identity and dynamics transfer, sequence generation, Fr\'echet Inception Distance, and factor classification. VDSM provides state-of-the-art performance and exceeds adversarial methods, even when the methods use additional supervision.

Causal reasoning is a crucial part of science and human intelligence. In order to discover causal relationships from data, we need structure discovery methods. We provide a review of background theory and a survey of methods for structure discovery. We primarily focus on modern, continuous optimization methods, and provide reference to further resources such as benchmark datasets and software packages. Finally, we discuss the assumptive leap required to take us from structure to causality., Comment: 35 pages

The replicability crisis has drawn attention to numerous weaknesses in psychology and social science research practice. In this work we focus on three issues that cannot be addressed with replication alone, and which deserve more attention: Functional misspecification, structural misspecification, and unreliable interpretation of results. We demonstrate a number of possible consequences via simulation, and provide recommendations for researchers to improve their research practice. Psychologists and social scientists should engage with these areas of analytical and statistical improvement, as they have the potential to seriously hinder scientific progress. Every research question and hypothesis may present its own unique challenges, and it is only through an awareness and understanding of varied statistical methods for predictive and causal modeling, that researchers will have the tools with which to appropriately address them.

Fair and unbiased machine learning is an important and active field of research, as decision processes are increasingly driven by models that learn from data. Unfortunately, any biases present in the data may be learned by the model, thereby inappropriately transferring that bias into the decision making process. We identify the connection between the task of bias reduction and that of isolating factors common between domains whilst encouraging domain specific invariance. To isolate the common factors we combine the theory of deep latent variable models with information bottleneck theory for scenarios whereby data may be naturally paired across domains and no additional supervision is required. The result is the Nested Variational AutoEncoder (NestedVAE). Two outer VAEs with shared weights attempt to reconstruct the input and infer a latent space, whilst a nested VAE attempts to reconstruct the latent representation of one image, from the latent representation of its paired image. In so doing, the nested VAE isolates the common latent factors/causes and becomes invariant to unwanted factors that are not shared between paired images. We also propose a new metric to provide a balanced method of evaluating consistency and classifier performance across domains which we refer to as the Adjusted Parity metric. An evaluation of NestedVAE on both domain and attribute invariance, change detection, and learning common factors for the prediction of biological sex demonstrates that NestedVAE significantly outperforms alternative methods.

Variational AutoEncoders (VAEs) provide a means to generate representational latent embeddings. Previous research has highlighted the benefits of achieving representations that are disentangled, particularly for downstream tasks. However, there is some debate about how to encourage disentanglement with VAEs and evidence indicates that existing implementations of VAEs do not achieve disentanglement consistently. The evaluation of how well a VAE's latent space has been disentangled is often evaluated against our subjective expectations of which attributes should be disentangled for a given problem. Therefore, by definition, we already have domain knowledge of what should be achieved and yet we use unsupervised approaches to achieve it. We propose a weakly-supervised approach that incorporates any available domain knowledge into the training process to form a Gated-VAE. The process involves partitioning the representational embedding and gating backpropagation. All partitions are utilised on the forward pass but gradients are backpropagated through different partitions according to selected image/target pairings. The approach can be used to modify existing VAE models such as beta-VAE, InfoVAE and DIP-VAE-II. Experiments demonstrate that using gated backpropagation, latent factors are represented in their intended partition. The approach is applied to images of faces for the purpose of disentangling head-pose from facial expression. Quantitative metrics show that using Gated-VAE improves average disentanglement, completeness and informativeness, as compared with un-gated implementations. Qualitative assessment of latent traversals demonstrate its disentanglement of head-pose from expression, even when only weak/noisy supervision is available.