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Jul 16

The Quest for the Right Mediator: A History, Survey, and Theoretical Grounding of Causal Interpretability

Interpretability provides a toolset for understanding how and why neural networks behave in certain ways. However, there is little unity in the field: most studies employ ad-hoc evaluations and do not share theoretical foundations, making it difficult to measure progress and compare the pros and cons of different techniques. Furthermore, while mechanistic understanding is frequently discussed, the basic causal units underlying these mechanisms are often not explicitly defined. In this paper, we propose a perspective on interpretability research grounded in causal mediation analysis. Specifically, we describe the history and current state of interpretability taxonomized according to the types of causal units (mediators) employed, as well as methods used to search over mediators. We discuss the pros and cons of each mediator, providing insights as to when particular kinds of mediators and search methods are most appropriate depending on the goals of a given study. We argue that this framing yields a more cohesive narrative of the field, as well as actionable insights for future work. Specifically, we recommend a focus on discovering new mediators with better trade-offs between human-interpretability and compute-efficiency, and which can uncover more sophisticated abstractions from neural networks than the primarily linear mediators employed in current work. We also argue for more standardized evaluations that enable principled comparisons across mediator types, such that we can better understand when particular causal units are better suited to particular use cases.

  • 13 authors
·
Aug 2, 2024

Chronos: A Physics-Informed Full-History Framework for Non-Markovian Long-Horizon Manipulation

General-purpose robot policies should be modeled as dynamical systems, yet many VLA and generative imitation policies still rely on present observations or short windows. This Markovian shortcut fails in memory-dependent manipulation: identical observations can demand different actions after different histories. We present Chronos, a physics-informed full-history framework for non-Markovian long-horizon manipulation. The key idea is to elevate observation history from auxiliary context to the latent state of the policy dynamics. At each physical control step, Chronos forms one state-representative token by fusing observation and proprioception, so the token sequence is aligned one-to-one with physical time. A selective state space model propagates this causal historical state, which conditions a multimodal coarse action prior through implicit maximum likelihood estimation (IMLE). This prior is then refined by a second-order Schrodinger-inspired bridge that predicts acceleration fields, yielding smoother and more physically grounded robot motion. Across 16 simulated tasks and 4 real-world experiments, Chronos is evaluated on precision insertion, general manipulation, and memory-dependent long-horizon control. On RMBench, where success requires remembering task phase, Chronos achieves 73.6% average success, outperforming Markovian VLA baseline pi0.5 by +62.4 percentage points, a 6.6x relative gain, while using 10x fewer parameters. It also surpasses the memory VLA Mem-0 by 22.8 points while using over 30x fewer parameters. In real-world dual-arm experiments using a single RGB camera, Chronos achieves 78% average success over four tasks, including 72% on the three memory-dependent tasks, whereas pi0.5 achieves 7% overall and 0% on the memory-dependent subset. These results suggest that history should not be treated as auxiliary context, but as the latent state of the manipulation policy.

  • 12 authors
·
Jun 28

NextQuill: Causal Preference Modeling for Enhancing LLM Personalization

Personalizing large language models (LLMs) for individual users has become increasingly important as they are progressively integrated into real-world applications to support users' daily lives. However, existing personalization approaches often fail to distinguish which components of model predictions and training data truly reflect user preferences, leading to superficial personalization alignment. In this paper, we introduce NextQuill, a novel LLM personalization alignment framework grounded in causal preference modeling. We approach personalization from a causal perspective, treating both model predictions and ground-truth data generation as outcomes influenced by user preferences, along with other factors. We define the true preference effect as the causal impact of user history (which reflects preferences) on each token prediction or data generation instance, estimated through causal intervention techniques. Building on this insight, NextQuill introduces two complementary alignment strategies: (1) aligning model-internal causal preference effects on predictions with those reflected in ground-truth data, rather than indiscriminately fitting predictions, and (2) focusing on fitting preference-bearing tokens identified via ground-truth data preference effects, rather than treating all tokens uniformly. By integrating these strategies, NextQuill shifts the alignment process toward learning from causal preference effects, facilitating more effective and personalized adaptation. Experiments across multiple personalization benchmarks demonstrate that NextQuill significantly improves personalization quality, offering a principled, causal foundation for LLM personalization. Our codes are available on https://github.com/juntaoyou/NextQuill.

  • 8 authors
·
Jun 2, 2025

Parallel Causal Associative Fields: Gated Sparse Memory for Long-Context Language Modeling

Transformers achieve strong language modeling performance by providing direct token-to-token communication paths, but causal self-attention scales quadratically with context length. Recurrent and state-space models reduce this cost, yet compress history into sequentially updated fixed-size states. This paper studies a third primitive: a parallel content-addressed memory over causal successor records. The proposed Parallel Causal Associative Field (PCAF) writes local records from a context window into hash buckets, retrieves a bounded candidate set for the current query, forms a sparse cache distribution over successor tokens, and mixes that cache with a parametric local language model through a learned gate. The resulting model maintains sparse long-context access while avoiding a single fixed recurrent state bottleneck. We evaluate PCAF under full autoregressive pretraining on WikiText-103 and PG-19 using a distributed Google Cloud TPU v4-32 pod. At 303M parameters and context length T = 2048, PCAF-semantic reaches 36.31 perplexity on WikiText-103 and 52.45 perplexity on PG-19, compared with 47.49 and 53.84 for a matched dense Transformer. PCAF-semantic simultaneously processes 0.61-0.62M tokens/s across the TPU pod, versus 0.43M tokens/s for dense and local attention baselines. Supporting 41M-parameter multi-seed sweeps and single-GPU component ablations show that the associative cache, retrieval capacity, and learned gate materially affect the speed-quality trade-off.

  • 1 authors
·
Jun 8

StructAgent: Harness Long-horizon Digital Agents with Unified Causal Structure

Recent advances in large language models (LLMs) and vision-language models (VLMs) have enabled increasingly capable digital agents for computer use. However, real-world tasks are often long-horizon and involve evolving contexts containing accumulated observations, intermediate edits, failed attempts, and partially completed executions. Existing agents typically operate over raw interaction history, making task progress difficult to interpret, verify, and recover, which ultimately limits reliable long-horizon execution. In this paper, we argue that addressing this challenge requires explicitly structuring both the agent's state and workflow around a unified causal representation of task progress. We present StructAgent, a state-centered framework that introduces a unified state for maintaining compact, verifiable task progress and a structured workflow that regulates progress through verifier-backed state transitions. Building on this design, StructAgent further enables explicit progress checkpointing, evidence-driven task completion, targeted failure recovery, and tool-supported execution, while ensuring that all progress updates remain grounded in verification. Extensive experiments demonstrate that StructAgent consistently improves a wide range of LLM and VLM backbones on long-horizon computer-use tasks. On OSWorld-Verified, it improves Qwen3.5-9B from 27.0\% to 46.9\% success rate and Qwen3.5-27B from 31.6\% to 62.2\%, while achieving a new open-source state of the art of 78.9\% with MiniMax-M3. Moreover, the same framework generalizes beyond desktop environments to Minecraft, demonstrating the generality of our design.

  • 6 authors
·
Jul 12

Causal Longitudinal Prior-Fitted Networks for Counterfactual Outcome Prediction

Longitudinal treatment decisions require predicting potential outcomes under future treatment sequences in the presence of time-varying confounding, heterogeneous patient dynamics, and limited domain-specific data. Existing longitudinal causal estimators typically train a new model for each cohort or simulator. We introduce Causal Longitudinal Prior-Fitted Networks (CausalLongPFN), a prior-fitted in-context predictor for longitudinal causal prediction. The model is pretrained entirely on synthetic episodes sampled from a broad prior over temporal structural causal models, exposing it to treatment-confounder feedback, latent heterogeneity, nonlinear state evolution, delayed effects, and cumulative treatment responses. At test time, CausalLongPFN is frozen: it conditions on support trajectories, a query history, and a proposed future treatment sequence, and returns a predictive distribution over future outcomes without gradient updates or propensity-model fitting. Multi-step predictions are obtained by recursively applying the one-step predictor under the specified treatment sequence. We evaluate on branchable cancer, HIV, and warfarin benchmarks with ground-truth counterfactual labels, and on factual-only rolling-origin prediction in MIMIC-III ICU trajectories. CausalLongPFN is competitive with domain-trained longitudinal baselines on counterfactual benchmarks and performs strongly on factual MIMIC-III prediction, suggesting that broad synthetic causal pretraining can provide a useful frozen alternative when repeated domain-specific training is costly or impractical.

  • 5 authors
·
Jun 3

Causal evidence for the primordiality of colours in trans-Neptunian objects

The origins of the colours of Trans-Neptunian Objects (TNOs) represent a crucial unresolved question, central to understanding the history of our Solar System. Recent observational surveys revealed correlations between the eccentricity and inclination of TNOs, and their colours. This rekindled the long-standing debate on whether these colours reflect the conditions of TNO formation or their subsequent evolution. We address this question using a model-agnostic, data-driven approach that unanimously converges to a common causal graph from the analysis of two different datasets, each from two different conditional independence test methods. For evaluation, we demonstrate how our model is consistent with the currently-accepted paradigms of TNOs' dynamical histories, without involving any orbital modelling or physics-based assumptions. Our causal model (with no knowledge of the existence of Neptune) predicts the need for an unknown confounding variable, consistent with Neptune's effects. The model predicts that the colour of TNOs is the root cause of their inclination distribution, rather than the other way around. This strongly suggests that the colours of TNOs reflect an underlying dynamical property, most likely their formation location. Our model excludes formation scenarios that invoke substantial colour modification by subsequent evolution. We conclude that the colours of TNOs are predominantly primordial.

  • 6 authors
·
Aug 13, 2025

Causal Evidence for the Primordiality of Colors in Trans-Neptunian Objects

The origins of the colors of Trans-Neptunian Objects (TNOs) represent a crucial unresolved question, central to understanding the history of our Solar System. Recent observational surveys have revealed correlations between the eccentricity and inclination of TNOs and their colors. This has rekindled the long-standing debate on whether these colors reflect the conditions of TNO formation or their subsequent collisional evolution. In this study, we address this question with 98.7% certainty, using a model-agnostic, data-driven approach based on causal graphs. First, as a sanity check, we demonstrate how our model can replicate the currently accepted paradigms of TNOs' dynamical history, blindly and without any orbital modeling or physics-based assumptions. In fact, our causal model (with no knowledge of the existence of Neptune) predicts the existence of an unknown perturbing body, i.e., Neptune. We then show how this model predicts, with high certainty, that the color of TNOs is the root cause of their inclination distribution, rather than the other way around. This strongly suggests that the colors of TNOs reflect an underlying dynamical property, most likely their formation location. Moreover, our causal model excludes formation scenarios that invoke substantial color modification by subsequent irradiation. We therefore conclude that the colors of TNOs are predominantly primordial.

  • 6 authors
·
Jul 4, 2025

Temporal Causal-based Simulation for Realistic Time-series Generation

Causal Discovery plays a pivotal role in revealing relationships among observed variables, particularly in the temporal setup. While the majority of CD methods rely on synthetic data for evaluation, and recently for training, these fall short in accurately mirroring real-world scenarios; an effect even more evident in temporal data. Generation techniques depending on simplified assumptions on causal structure, effects and time, limit the quality and diversity of the simulated data. In this work, we introduce Temporal Causal-based Simulation (TCS), a robust framework for generating realistic time-series data and their associated temporal causal graphs. The approach is structured in three phases: estimating the true lagged causal structure of the data, approximating the functional dependencies between variables and learning the noise distribution of the corresponding causal model, each part of which can be explicitly tailored based on data assumptions and characteristics. Through an extensive evaluation process, we highlight that single detection methods for generated data discrimination prove inadequate, accentuating it as a multifaceted challenge. For this, we detail a Min-max optimization phase that draws on AutoML techniques. Our contributions include a flexible, model-agnostic pipeline for generating realistic temporal causal data, a thorough evaluation setup which enhances the validity of the generated datasets and insights into the challenges posed by realistic data generation. Through experiments involving not only real but also semi-synthetic and purely synthetic datasets, we demonstrate that while sampling realistic causal data remains a complex task, our method enriches the domain of generating sensible causal-based temporal data.

  • 7 authors
·
Jun 2, 2025

Transition Matching: Scalable and Flexible Generative Modeling

Diffusion and flow matching models have significantly advanced media generation, yet their design space is well-explored, somewhat limiting further improvements. Concurrently, autoregressive (AR) models, particularly those generating continuous tokens, have emerged as a promising direction for unifying text and media generation. This paper introduces Transition Matching (TM), a novel discrete-time, continuous-state generative paradigm that unifies and advances both diffusion/flow models and continuous AR generation. TM decomposes complex generation tasks into simpler Markov transitions, allowing for expressive non-deterministic probability transition kernels and arbitrary non-continuous supervision processes, thereby unlocking new flexible design avenues. We explore these choices through three TM variants: (i) Difference Transition Matching (DTM), which generalizes flow matching to discrete-time by directly learning transition probabilities, yielding state-of-the-art image quality and text adherence as well as improved sampling efficiency. (ii) Autoregressive Transition Matching (ARTM) and (iii) Full History Transition Matching (FHTM) are partially and fully causal models, respectively, that generalize continuous AR methods. They achieve continuous causal AR generation quality comparable to non-causal approaches and potentially enable seamless integration with existing AR text generation techniques. Notably, FHTM is the first fully causal model to match or surpass the performance of flow-based methods on text-to-image task in continuous domains. We demonstrate these contributions through a rigorous large-scale comparison of TM variants and relevant baselines, maintaining a fixed architecture, training data, and hyperparameters.

  • 4 authors
·
Jun 30, 2025

Geometric Action Model for Robot Policy Learning

Generalist robot policies must follow user instructions while reasoning about how objects, cameras, and robot actions interact in the 3D physical world. Recent vision-language-action models (VLAs) and video world-action models (WAMs) inherit strong semantic or temporal priors from large-scale foundation models, but they still operate primarily on 2D image frames or 2D-derived latent spaces, leaving implicit the 3D geometry required for contact-rich manipulation. We propose the Geometric Action Model (GAM), a language-conditioned manipulation policy that directly repurposes a pretrained geometric foundation model (GFM) as a shared substrate for perception, temporal prediction, and action decoding. GAM splits the GFM at an intermediate layer: the shallow layers serve as an observation encoder, and a causal future predictor inserted at the split layer forecasts future latent tokens conditioned on language, proprioception, and action history. The predicted future tokens are then routed through the remaining GFM blocks for feature propagation and decoding, allowing a single backbone to produce both future geometry and actions. This design equips the GFM with language-conditioned temporal world modeling through minimal architectural modification while preserving its rich geometric priors. Across a broad suite of simulation and real-robot manipulation benchmarks, GAM is more accurate, more robust, faster, and lighter than current foundation-model-scale baselines.

ETHZurich ETH Zürich
·
Jun 14 3

Beyond Blame: Rethinking SZZ with Knowledge Graph Search

Identifying Bug-Inducing Commits (BICs) is fundamental for understanding software defects and enabling downstream tasks such as defect prediction and automated program repair. Yet existing SZZ-based approaches are limited by their reliance on git blame, which restricts the search space to commits that directly modified the fixed lines. Our preliminary study on 2,102 validated bug-fixing commits reveals that this limitation is significant: over 40% of cases cannot be solved by blame alone, as 28% of BICs require traversing commit history beyond blame results and 14% are blameless. We present AgenticSZZ, the first approach to apply Temporal Knowledge Graphs (TKGs) to software evolution analysis. AgenticSZZ reframes BIC identification from a ranking problem over blame commits into a graph search problem, where temporal ordering is fundamental to causal reasoning about bug introduction. The approach operates in two phases: (1) constructing a TKG that encodes commits with temporal and structural relationships, expanding the search space by traversing file history backward from two reference points (blame commits and the BFC); and (2) leveraging an LLM agent to navigate the graph using specialized tools for candidate exploration and causal analysis. Evaluation on three datasets shows that AgenticSZZ achieves F1-scores of 0.48 to 0.74, with statistically significant improvements over state-of-the-art by up to 27%. Our ablation study confirms that both components are essential, reflecting a classic exploration-exploitation trade-off: the TKG expands the search space while the agent provides intelligent selection. By transforming BIC identification into a graph search problem, we open a new research direction for temporal and causal reasoning in software evolution analysis.

  • 4 authors
·
Feb 2

SAMoE-VLA: A Scene Adaptive Mixture-of-Experts Vision-Language-Action Model for Autonomous Driving

Recent advances in Vision-Language-Action (VLA) models have shown promising capabilities in autonomous driving by leveraging the understanding and reasoning strengths of Large Language Models(LLMs).However, our empirical analysis reveals that directly applying existing token-level MoE mechanisms--which are inherited from LLM architectures--to VLA models results in unstable performance and safety degradation in autonomous driving, highlighting a misalignment between token-based expert specialization and scene-level decision-making.To address this, we propose SAMoE-VLA, a scene-adaptive Vision-Language-Action framework that conditions expert selection on structured scene representations instead of token embeddings. Our key idea is to derive the MoE routing signal from bird's-eye-view (BEV) features that encapsulates traffic scene context, enabling scenario-dependent expert weighting and merging tailored to distinct driving conditions. Furthermore, to support temporally consistent reasoning across world-knowledge, perception, language, and action, we introduce a Conditional Cross-Modal Causal Attention mechanism that integrates world state, linguistic intent, and action history into a unified causal reasoning process. Extensive experiments on the nuScenes open loop planning dataset and LangAuto closed-loop benchmark demonstrate that SAMoE-VLA achieves state-of-the-art performance, outperforming prior VLA-based and world-model-based approaches with fewer parameters.Our code will be released soon.

  • 7 authors
·
Mar 8

CausalTime: Realistically Generated Time-series for Benchmarking of Causal Discovery

Time-series causal discovery (TSCD) is a fundamental problem of machine learning. However, existing synthetic datasets cannot properly evaluate or predict the algorithms' performance on real data. This study introduces the CausalTime pipeline to generate time-series that highly resemble the real data and with ground truth causal graphs for quantitative performance evaluation. The pipeline starts from real observations in a specific scenario and produces a matching benchmark dataset. Firstly, we harness deep neural networks along with normalizing flow to accurately capture realistic dynamics. Secondly, we extract hypothesized causal graphs by performing importance analysis on the neural network or leveraging prior knowledge. Thirdly, we derive the ground truth causal graphs by splitting the causal model into causal term, residual term, and noise term. Lastly, using the fitted network and the derived causal graph, we generate corresponding versatile time-series proper for algorithm assessment. In the experiments, we validate the fidelity of the generated data through qualitative and quantitative experiments, followed by a benchmarking of existing TSCD algorithms using these generated datasets. CausalTime offers a feasible solution to evaluating TSCD algorithms in real applications and can be generalized to a wide range of fields. For easy use of the proposed approach, we also provide a user-friendly website, hosted on www.causaltime.cc.

  • 6 authors
·
Oct 2, 2023

Causal de Finetti: On the Identification of Invariant Causal Structure in Exchangeable Data

Learning causal structure from observational data often assumes that we observe independent and identically distributed (i.\,i.\,d) data. The traditional approach aims to find a graphical representation that encodes the same set of conditional independence relationships as those present in the observed distribution. It is known that under i.\,i.\,d assumption, even with infinite data, there is a limit to how fine-grained a causal structure we can identify. To overcome this limitation, recent work has explored using data originating from different, related environments to learn richer causal structure. These approaches implicitly rely on the independent causal mechanisms (ICM) principle, which postulates that the mechanism giving rise to an effect given its causes and the mechanism which generates the causes do not inform or influence each other. Thus, components of the causal model can independently change from environment to environment. Despite its wide application in machine learning and causal inference, there is a lack of statistical formalization of the ICM principle and how it enables identification of richer causal structures from grouped data. Here we present new causal de Finetti theorems which offer a first statistical formalization of ICM principle and show how causal structure identification is possible from exchangeable data. Our work provides theoretical justification for a broad range of techniques leveraging multi-environment data to learn causal structure.

  • 4 authors
·
Mar 29, 2022

Cause and Effect: Can Large Language Models Truly Understand Causality?

With the rise of Large Language Models(LLMs), it has become crucial to understand their capabilities and limitations in deciphering and explaining the complex web of causal relationships that language entails. Current methods use either explicit or implicit causal reasoning, yet there is a strong need for a unified approach combining both to tackle a wide array of causal relationships more effectively. This research proposes a novel architecture called Context Aware Reasoning Enhancement with Counterfactual Analysis(CARE CA) framework to enhance causal reasoning and explainability. The proposed framework incorporates an explicit causal detection module with ConceptNet and counterfactual statements, as well as implicit causal detection through LLMs. Our framework goes one step further with a layer of counterfactual explanations to accentuate LLMs understanding of causality. The knowledge from ConceptNet enhances the performance of multiple causal reasoning tasks such as causal discovery, causal identification and counterfactual reasoning. The counterfactual sentences add explicit knowledge of the not caused by scenarios. By combining these powerful modules, our model aims to provide a deeper understanding of causal relationships, enabling enhanced interpretability. Evaluation of benchmark datasets shows improved performance across all metrics, such as accuracy, precision, recall, and F1 scores. We also introduce CausalNet, a new dataset accompanied by our code, to facilitate further research in this domain.

  • 9 authors
·
Feb 28, 2024

Causal-Copilot: An Autonomous Causal Analysis Agent

Causal analysis plays a foundational role in scientific discovery and reliable decision-making, yet it remains largely inaccessible to domain experts due to its conceptual and algorithmic complexity. This disconnect between causal methodology and practical usability presents a dual challenge: domain experts are unable to leverage recent advances in causal learning, while causal researchers lack broad, real-world deployment to test and refine their methods. To address this, we introduce Causal-Copilot, an autonomous agent that operationalizes expert-level causal analysis within a large language model framework. Causal-Copilot automates the full pipeline of causal analysis for both tabular and time-series data -- including causal discovery, causal inference, algorithm selection, hyperparameter optimization, result interpretation, and generation of actionable insights. It supports interactive refinement through natural language, lowering the barrier for non-specialists while preserving methodological rigor. By integrating over 20 state-of-the-art causal analysis techniques, our system fosters a virtuous cycle -- expanding access to advanced causal methods for domain experts while generating rich, real-world applications that inform and advance causal theory. Empirical evaluations demonstrate that Causal-Copilot achieves superior performance compared to existing baselines, offering a reliable, scalable, and extensible solution that bridges the gap between theoretical sophistication and real-world applicability in causal analysis. A live interactive demo of Causal-Copilot is available at https://causalcopilot.com/.

  • 13 authors
·
Apr 17, 2025 2

Causal Discovery from Heterogeneous/Nonstationary Data with Independent Changes

It is commonplace to encounter heterogeneous or nonstationary data, of which the underlying generating process changes across domains or over time. Such a distribution shift feature presents both challenges and opportunities for causal discovery. In this paper, we develop a framework for causal discovery from such data, called Constraint-based causal Discovery from heterogeneous/NOnstationary Data (CD-NOD), to find causal skeleton and directions and estimate the properties of mechanism changes. First, we propose an enhanced constraint-based procedure to detect variables whose local mechanisms change and recover the skeleton of the causal structure over observed variables. Second, we present a method to determine causal orientations by making use of independent changes in the data distribution implied by the underlying causal model, benefiting from information carried by changing distributions. After learning the causal structure, next, we investigate how to efficiently estimate the "driving force" of the nonstationarity of a causal mechanism. That is, we aim to extract from data a low-dimensional representation of changes. The proposed methods are nonparametric, with no hard restrictions on data distributions and causal mechanisms, and do not rely on window segmentation. Furthermore, we find that data heterogeneity benefits causal structure identification even with particular types of confounders. Finally, we show the connection between heterogeneity/nonstationarity and soft intervention in causal discovery. Experimental results on various synthetic and real-world data sets (task-fMRI and stock market data) are presented to demonstrate the efficacy of the proposed methods.

  • 7 authors
·
Mar 5, 2019

Bootstrap aggregation and confidence measures to improve time series causal discovery

Learning causal graphs from multivariate time series is a ubiquitous challenge in all application domains dealing with time-dependent systems, such as in Earth sciences, biology, or engineering, to name a few. Recent developments for this causal discovery learning task have shown considerable skill, notably the specific time-series adaptations of the popular conditional independence-based learning framework. However, uncertainty estimation is challenging for conditional independence-based methods. Here, we introduce a novel bootstrap approach designed for time series causal discovery that preserves the temporal dependencies and lag structure. It can be combined with a range of time series causal discovery methods and provides a measure of confidence for the links of the time series graphs. Furthermore, next to confidence estimation, an aggregation, also called bagging, of the bootstrapped graphs by majority voting results in bagged causal discovery methods. In this work, we combine this approach with the state-of-the-art conditional-independence-based algorithm PCMCI+. With extensive numerical experiments we empirically demonstrate that, in addition to providing confidence measures for links, Bagged-PCMCI+ improves in precision and recall as compared to its base algorithm PCMCI+, at the cost of higher computational demands. These statistical performance improvements are especially pronounced in the more challenging settings (short time sample size, large number of variables, high autocorrelation). Our bootstrap approach can also be combined with other time series causal discovery algorithms and can be of considerable use in many real-world applications.

  • 4 authors
·
Jun 15, 2023

NoisyCausal: A Benchmark for Evaluating Causal Reasoning Under Structured Noise

Causal reasoning in natural language requires identifying relevant variables, understanding their interactions, and reasoning about effects and interventions, often under noisy or ambiguous conditions. While large language models (LLMs) exhibit strong general reasoning abilities, they struggle to disentangle correlation from causation, particularly when observations are partially incorrect or irrelevant information is present. In this work, we introduce NoisyCausal, a new benchmark designed to evaluate causal reasoning under structured noise. Each instance is generated from a ground-truth causal graph and contextualized with a natural language scenario by injecting controllable forms of noise, such as irrelevant distractors, value perturbations, confounding, and partial observability. Moreover, we propose a modular reasoning framework that combines LLMs with explicit causal structure to address these challenges. Our method prompts the LLM to extract variables, construct a causal graph from context, and then reformulates the reasoning task as a structured prompt grounded in this graph. Rather than relying on statistical patterns alone, the LLM is guided by symbolic structure, enabling more interpretable and robust inference. Experimental results show that our method significantly outperforms standard prompting and reasoning baselines on NoisyCausal. Furthermore, it generalizes well to external benchmarks such as Cladder without task-specific tuning. Our findings highlight the importance of combining causal abstractions with language-driven reasoning to achieve faithful and robust causal understanding in LLMs.

  • 2 authors
·
May 4

Causal Reasoning and Large Language Models: Opening a New Frontier for Causality

The causal capabilities of large language models (LLMs) are a matter of significant debate, with critical implications for the use of LLMs in societally impactful domains such as medicine, science, law, and policy. We conduct a "behavorial" study of LLMs to benchmark their capability in generating causal arguments. Across a wide range of tasks, we find that LLMs can generate text corresponding to correct causal arguments with high probability, surpassing the best-performing existing methods. Algorithms based on GPT-3.5 and 4 outperform existing algorithms on a pairwise causal discovery task (97%, 13 points gain), counterfactual reasoning task (92%, 20 points gain) and event causality (86% accuracy in determining necessary and sufficient causes in vignettes). We perform robustness checks across tasks and show that the capabilities cannot be explained by dataset memorization alone, especially since LLMs generalize to novel datasets that were created after the training cutoff date. That said, LLMs exhibit unpredictable failure modes, and we discuss the kinds of errors that may be improved and what are the fundamental limits of LLM-based answers. Overall, by operating on the text metadata, LLMs bring capabilities so far understood to be restricted to humans, such as using collected knowledge to generate causal graphs or identifying background causal context from natural language. As a result, LLMs may be used by human domain experts to save effort in setting up a causal analysis, one of the biggest impediments to the widespread adoption of causal methods. Given that LLMs ignore the actual data, our results also point to a fruitful research direction of developing algorithms that combine LLMs with existing causal techniques. Code and datasets are available at https://github.com/py-why/pywhy-llm.

  • 4 authors
·
Apr 28, 2023

Large Causal Models from Large Language Models

We introduce a new paradigm for building large causal models (LCMs) that exploits the enormous potential latent in today's large language models (LLMs). We describe our ongoing experiments with an implemented system called DEMOCRITUS (Decentralized Extraction of Manifold Ontologies of Causal Relations Integrating Topos Universal Slices) aimed at building, organizing, and visualizing LCMs that span disparate domains extracted from carefully targeted textual queries to LLMs. DEMOCRITUS is methodologically distinct from traditional narrow domain and hypothesis centered causal inference that builds causal models from experiments that produce numerical data. A high-quality LLM is used to propose topics, generate causal questions, and extract plausible causal statements from a diverse range of domains. The technical challenge is then to take these isolated, fragmented, potentially ambiguous and possibly conflicting causal claims, and weave them into a coherent whole, converting them into relational causal triples and embedding them into a LCM. Addressing this technical challenge required inventing new categorical machine learning methods, which we can only briefly summarize in this paper, as it is focused more on the systems side of building DEMOCRITUS. We describe the implementation pipeline for DEMOCRITUS comprising of six modules, examine its computational cost profile to determine where the current bottlenecks in scaling the system to larger models. We describe the results of using DEMOCRITUS over a wide range of domains, spanning archaeology, biology, climate change, economics, medicine and technology. We discuss the limitations of the current DEMOCRITUS system, and outline directions for extending its capabilities.

  • 1 authors
·
Dec 8, 2025

CDFM: Towards a General-Purpose Causal Discovery Foundation Model

Causal discovery, the process of recovering underlying causal structures from observational data, is a fundamental pursuit across scientific disciplines. Over the past decades, numerous algorithms have been developed to tackle this challenge through workflows tailored to the specific causal mechanisms underlying each type of dataset, demonstrating effectiveness across a wide range of applications. However, as the volume and heterogeneity of real-world data continue to grow, this dataset-specific approach inevitably leads to a fragmented, test-driven paradigm that struggles to scale to the demands of modern scientific discovery. To address this, we formulate the Causal Discovery Foundation Model (CDFM) as a unified, general-purpose framework for zero-shot structural inference. To ensure reliable generalization across unknown domains, we first investigate the theoretical boundaries of causal identifiability, revealing the indispensable role of causal prior mechanisms in this process. Building on these insights, we formulate a principled variational framework that treats unknown causal mechanisms as latent variables and mathematically decomposes the intractable marginal likelihood into distinct, tractable learning modules. The variational decomposition provides a conceptual design principle for the architecture design of CDFM, while comprehensive causal knowledge guides the large-scale synthesis of our pretraining data. By pretraining on a massive, highly diverse space of synthetic structural causal models, CDFM successfully internalizes complex statistical asymmetries. Extensive experiments demonstrate that CDFM consistently outperforms traditional algorithms, driving a paradigm shift toward a general-purpose causal discovery foundation model.

  • 9 authors
·
Jul 12

DeepVisualInsight: Time-Travelling Visualization for Spatio-Temporal Causality of Deep Classification Training

Understanding how the predictions of deep learning models are formed during the training process is crucial to improve model performance and fix model defects, especially when we need to investigate nontrivial training strategies such as active learning, and track the root cause of unexpected training results such as performance degeneration. In this work, we propose a time-travelling visual solution DeepVisualInsight (DVI), aiming to manifest the spatio-temporal causality while training a deep learning image classifier. The spatio-temporal causality demonstrates how the gradient-descent algorithm and various training data sampling techniques can influence and reshape the layout of learnt input representation and the classification boundaries in consecutive epochs. Such causality allows us to observe and analyze the whole learning process in the visible low dimensional space. Technically, we propose four spatial and temporal properties and design our visualization solution to satisfy them. These properties preserve the most important information when inverse-)projecting input samples between the visible low-dimensional and the invisible high-dimensional space, for causal analyses. Our extensive experiments show that, comparing to baseline approaches, we achieve the best visualization performance regarding the spatial/temporal properties and visualization efficiency. Moreover, our case study shows that our visual solution can well reflect the characteristics of various training scenarios, showing good potential of DVI as a debugging tool for analyzing deep learning training processes.

  • 7 authors
·
Dec 30, 2021

Causal Inference by String Diagram Surgery

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.

  • 3 authors
·
Nov 20, 2018

Asymmetric Graph Error Control with Low Complexity in Causal Bandits

In this paper, the causal bandit problem is investigated, in which the objective is to select an optimal sequence of interventions on nodes in a causal graph. It is assumed that the graph is governed by linear structural equations; it is further assumed that both the causal topology and the distribution of interventions are unknown. By exploiting the causal relationships between the nodes whose signals contribute to the reward, interventions are optimized. First, based on the difference between the two types of graph identification errors (false positives and negatives), a causal graph learning method is proposed, which strongly reduces sample complexity relative to the prior art by learning sub-graphs. Under the assumption of Gaussian exogenous inputs and minimum-mean squared error weight estimation, a new uncertainty bound tailored to the causal bandit problem is derived. This uncertainty bound drives an upper confidence bound based intervention selection to optimize the reward. To cope with non-stationary bandits, a sub-graph change detection mechanism is proposed, with high sample efficiency. Numerical results compare the new methodology to existing schemes and show a substantial performance improvement in both stationary and non-stationary settings. Compared to existing approaches, the proposed scheme takes 67% fewer samples to learn the causal structure and achieves an average reward gain of 85%.

  • 3 authors
·
Aug 20, 2024

Root Cause Analysis In Microservice Using Neural Granger Causal Discovery

In recent years, microservices have gained widespread adoption in IT operations due to their scalability, maintenance, and flexibility. However, it becomes challenging for site reliability engineers (SREs) to pinpoint the root cause due to the complex relationships in microservices when facing system malfunctions. Previous research employed structured learning methods (e.g., PC-algorithm) to establish causal relationships and derive root causes from causal graphs. Nevertheless, they ignored the temporal order of time series data and failed to leverage the rich information inherent in the temporal relationships. For instance, in cases where there is a sudden spike in CPU utilization, it can lead to an increase in latency for other microservices. However, in this scenario, the anomaly in CPU utilization occurs before the latency increase, rather than simultaneously. As a result, the PC-algorithm fails to capture such characteristics. To address these challenges, we propose RUN, a novel approach for root cause analysis using neural Granger causal discovery with contrastive learning. RUN enhances the backbone encoder by integrating contextual information from time series, and leverages a time series forecasting model to conduct neural Granger causal discovery. In addition, RUN incorporates Pagerank with a personalization vector to efficiently recommend the top-k root causes. Extensive experiments conducted on the synthetic and real-world microservice-based datasets demonstrate that RUN noticeably outperforms the state-of-the-art root cause analysis methods. Moreover, we provide an analysis scenario for the sock-shop case to showcase the practicality and efficacy of RUN in microservice-based applications. Our code is publicly available at https://github.com/zmlin1998/RUN.

  • 5 authors
·
Feb 1, 2024

Environment-Adaptive Covariate Selection: Learning When to Use Spurious Correlations for Out-of-Distribution Prediction

Out-of-distribution (OOD) prediction is often approached by restricting models to causal or invariant covariates, avoiding non-causal spurious associations that may be unstable across environments. Despite its theoretical appeal, this strategy frequently underperforms empirical risk minimization (ERM) in practice. We investigate the source of this gap and show that such failures naturally arise when only a subset of the true causes of the outcome is observed. In these settings, non-causal spurious covariates can serve as informative proxies for unobserved causes and substantially improve prediction, except under distribution shifts that break these proxy relationships. Consequently, the optimal set of predictive covariates is neither universal nor necessarily exhibits invariant relationships with the outcome across all environments, but instead depends on the specific type of shift encountered. Crucially, we observe that different covariate shifts induce distinct, observable signatures in the covariate distribution itself. Moreover, these signatures can be extracted from unlabeled data in the target OOD environment and used to assess when proxy covariates remain reliable and when they fail. Building on this observation, we propose an environment-adaptive covariate selection (EACS) algorithm that maps environment-level covariate summaries to environment-specific covariate sets, while allowing the incorporation of prior causal knowledge as constraints. Across simulations and applied datasets, EACS consistently outperforms static causal, invariant, and ERM-based predictors under diverse distribution shifts.

  • 2 authors
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Jan 5

iReason: Multimodal Commonsense Reasoning using Videos and Natural Language with Interpretability

Causality knowledge is vital to building robust AI systems. Deep learning models often perform poorly on tasks that require causal reasoning, which is often derived using some form of commonsense knowledge not immediately available in the input but implicitly inferred by humans. Prior work has unraveled spurious observational biases that models fall prey to in the absence of causality. While language representation models preserve contextual knowledge within learned embeddings, they do not factor in causal relationships during training. By blending causal relationships with the input features to an existing model that performs visual cognition tasks (such as scene understanding, video captioning, video question-answering, etc.), better performance can be achieved owing to the insight causal relationships bring about. Recently, several models have been proposed that have tackled the task of mining causal data from either the visual or textual modality. However, there does not exist widespread research that mines causal relationships by juxtaposing the visual and language modalities. While images offer a rich and easy-to-process resource for us to mine causality knowledge from, videos are denser and consist of naturally time-ordered events. Also, textual information offers details that could be implicit in videos. We propose iReason, a framework that infers visual-semantic commonsense knowledge using both videos and natural language captions. Furthermore, iReason's architecture integrates a causal rationalization module to aid the process of interpretability, error analysis and bias detection. We demonstrate the effectiveness of iReason using a two-pronged comparative analysis with language representation learning models (BERT, GPT-2) as well as current state-of-the-art multimodal causality models.

  • 2 authors
·
Jun 24, 2021

Effect Heterogeneity with Earth Observation in Randomized Controlled Trials: Exploring the Role of Data, Model, and Evaluation Metric Choice

Many social and environmental phenomena are associated with macroscopic changes in the built environment, captured by satellite imagery on a global scale and with daily temporal resolution. While widely used for prediction, these images and especially image sequences remain underutilized for causal inference, especially in the context of randomized controlled trials (RCTs), where causal identification is established by design. In this paper, we develop and compare a set of general tools for analyzing Conditional Average Treatment Effects (CATEs) from temporal satellite data that can be applied to any RCT where geographical identifiers are available. Through a simulation study, we analyze different modeling strategies for estimating CATE in sequences of satellite images. We find that image sequence representation models with more parameters generally yield a greater ability to detect heterogeneity. To explore the role of model and data choice in practice, we apply the approaches to two influential RCTs -- Banerjee et al. (2015), a poverty study in Cusco, Peru, and Bolsen et al. (2014), a water conservation experiment in Georgia, USA. We benchmark our image sequence models against image-only, tabular-only, and combined image-tabular data sources, summarizing practical implications for investigators in a multivariate analysis. Land cover classifications over satellite images facilitate interpretation of what image features drive heterogeneity. We also show robustness to data and model choice of satellite-based generalization of the RCT results to larger geographical areas outside the original. Overall, this paper shows how satellite sequence data can be incorporated into the analysis of RCTs, and provides evidence about the implications of data, model, and evaluation metric choice for causal analysis.

Teaching Transformers Causal Reasoning through Axiomatic Training

For text-based AI systems to interact in the real world, causal reasoning is an essential skill. Since interventional data is costly to generate, we study to what extent an agent can learn causal reasoning from passive data. Specifically, we consider an axiomatic training setup where an agent learns from multiple demonstrations of a causal axiom (or rule), rather than incorporating the axiom as an inductive bias or inferring it from data values. A key question is whether the agent would learn to generalize from the axiom demonstrations to new scenarios. For example, if a transformer model is trained on demonstrations of the causal transitivity axiom over small graphs, would it generalize to applying the transitivity axiom over large graphs? Our results, based on a novel axiomatic training scheme, indicate that such generalization is possible. We consider the task of inferring whether a variable causes another variable, given a causal graph structure. We find that a 67 million parameter transformer model, when trained on linear causal chains (along with some noisy variations) can generalize well to new kinds of graphs, including longer causal chains, causal chains with reversed order, and graphs with branching; even when it is not explicitly trained for such settings. Our model performs at par (or even better) than many larger language models such as GPT-4, Gemini Pro, and Phi-3. Overall, our axiomatic training framework provides a new paradigm of learning causal reasoning from passive data that can be used to learn arbitrary axioms, as long as sufficient demonstrations can be generated.

  • 5 authors
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Jul 10, 2024

AC-Reason: Towards Theory-Guided Actual Causality Reasoning with Large Language Models

Actual causality (AC), a fundamental aspect of causal reasoning (CR), is responsible for attribution and responsibility assignment in real-world scenarios. However, existing LLM-based methods lack grounding in formal AC theory, resulting in limited interpretability. Therefore, we propose AC-Reason, a semi-formal reasoning framework that identifies causally relevant events within an AC scenario, infers the values of their formal causal factors (e.g., sufficiency, necessity, and normality), and answers AC queries via a theory-guided algorithm with explanations. While AC-Reason does not explicitly construct a causal graph, it operates over variables in the underlying causal structure to support principled reasoning. To enable comprehensive evaluation, we introduce AC-Bench, a new benchmark built upon and substantially extending Big-Bench Hard Causal Judgment (BBH-CJ). AC-Bench comprises ~1K carefully annotated samples, each with detailed reasoning steps and focuses solely on actual causation. The case study shows that synthesized samples in AC-Bench present greater challenges for LLMs. Extensive experiments on BBH-CJ and AC-Bench show that AC-Reason consistently improves LLM performance over baselines. On BBH-CJ, all tested LLMs surpass the average human rater accuracy of 69.60%, with GPT-4 + AC-Reason achieving 75.04%. On AC-Bench, GPT-4 + AC-Reason again achieves the highest accuracy of 71.82%. AC-Bench further enables fine-grained analysis of reasoning faithfulness, revealing that only Qwen-2.5-72B-Instruct, Claude-3.5-Sonnet, and GPT-4o exhibit faithful reasoning, whereas GPT-4 tends to exploit shortcuts. Finally, our ablation study proves that integrating AC theory into LLMs is highly effective, with the proposed algorithm contributing the most significant performance gains.

  • 6 authors
·
May 13, 2025

Causal Scaffolding for Physical Reasoning: A Benchmark for Causally-Informed Physical World Understanding in VLMs

Understanding and reasoning about the physical world is the foundation of intelligent behavior, yet state-of-the-art vision-language models (VLMs) still fail at causal physical reasoning, often producing plausible but incorrect answers. To address this gap, we introduce CausalPhys, a benchmark of over 3,000 carefully curated video- and image-based questions spanning four domains: Perception, Anticipation, Intervention, and Goal Orientation. Each question is paired with an expert-annotated causal graph capturing object-attribute-event dependencies, enabling interpretable and fine-grained evaluation of causal understanding. Building on this, we formulate a causal-graph-grounded metric that quantitatively measures how well a model's chain-of-thought reasoning aligns with the correct causal relations, moving beyond answer-only accuracy and enabling systematic diagnosis of VLMs' causal reasoning failures. Using this metric, we conduct a comprehensive analysis of leading VLMs, revealing systematic gaps in capturing causal dependencies and underscoring the need for causality-aware learning. To address these limitations, we further propose Causal Rationale-informed Fine-Tuning (CRFT), which explicitly aligns VLM reasoning with causal structures. Extensive experiments demonstrate that CRFT substantially enhances both reasoning accuracy and interpretability across multiple model backbones. By unifying dataset curation, causal evaluation, and causality-informed learning, CausalPhys establishes a strong foundation for advancing modern VLMs toward causally grounded physical reasoning.

  • 7 authors
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Jun 3

CausaLM: Causal Model Explanation Through Counterfactual Language Models

Understanding predictions made by deep neural networks is notoriously difficult, but also crucial to their dissemination. As all machine learning based methods, they are as good as their training data, and can also capture unwanted biases. While there are tools that can help understand whether such biases exist, they do not distinguish between correlation and causation, and might be ill-suited for text-based models and for reasoning about high level language concepts. A key problem of estimating the causal effect of a concept of interest on a given model is that this estimation requires the generation of counterfactual examples, which is challenging with existing generation technology. To bridge that gap, we propose CausaLM, a framework for producing causal model explanations using counterfactual language representation models. Our approach is based on fine-tuning of deep contextualized embedding models with auxiliary adversarial tasks derived from the causal graph of the problem. Concretely, we show that by carefully choosing auxiliary adversarial pre-training tasks, language representation models such as BERT can effectively learn a counterfactual representation for a given concept of interest, and be used to estimate its true causal effect on model performance. A byproduct of our method is a language representation model that is unaffected by the tested concept, which can be useful in mitigating unwanted bias ingrained in the data.

  • 4 authors
·
May 27, 2020

Causal Diffusion Autoencoders: Toward Counterfactual Generation via Diffusion Probabilistic Models

Diffusion probabilistic models (DPMs) have become the state-of-the-art in high-quality image generation. However, DPMs have an arbitrary noisy latent space with no interpretable or controllable semantics. Although there has been significant research effort to improve image sample quality, there is little work on representation-controlled generation using diffusion models. Specifically, causal modeling and controllable counterfactual generation using DPMs is an underexplored area. In this work, we propose CausalDiffAE, a diffusion-based causal representation learning framework to enable counterfactual generation according to a specified causal model. Our key idea is to use an encoder to extract high-level semantically meaningful causal variables from high-dimensional data and model stochastic variation using reverse diffusion. We propose a causal encoding mechanism that maps high-dimensional data to causally related latent factors and parameterize the causal mechanisms among latent factors using neural networks. To enforce the disentanglement of causal variables, we formulate a variational objective and leverage auxiliary label information in a prior to regularize the latent space. We propose a DDIM-based counterfactual generation procedure subject to do-interventions. Finally, to address the limited label supervision scenario, we also study the application of CausalDiffAE when a part of the training data is unlabeled, which also enables granular control over the strength of interventions in generating counterfactuals during inference. We empirically show that CausalDiffAE learns a disentangled latent space and is capable of generating high-quality counterfactual images.

  • 4 authors
·
Apr 26, 2024

Causal Information Prioritization for Efficient Reinforcement Learning

Current Reinforcement Learning (RL) methods often suffer from sample-inefficiency, resulting from blind exploration strategies that neglect causal relationships among states, actions, and rewards. Although recent causal approaches aim to address this problem, they lack grounded modeling of reward-guided causal understanding of states and actions for goal-orientation, thus impairing learning efficiency. To tackle this issue, we propose a novel method named Causal Information Prioritization (CIP) that improves sample efficiency by leveraging factored MDPs to infer causal relationships between different dimensions of states and actions with respect to rewards, enabling the prioritization of causal information. Specifically, CIP identifies and leverages causal relationships between states and rewards to execute counterfactual data augmentation to prioritize high-impact state features under the causal understanding of the environments. Moreover, CIP integrates a causality-aware empowerment learning objective, which significantly enhances the agent's execution of reward-guided actions for more efficient exploration in complex environments. To fully assess the effectiveness of CIP, we conduct extensive experiments across 39 tasks in 5 diverse continuous control environments, encompassing both locomotion and manipulation skills learning with pixel-based and sparse reward settings. Experimental results demonstrate that CIP consistently outperforms existing RL methods across a wide range of scenarios.

  • 5 authors
·
Feb 14, 2025

PubMedCausal: A Span-Level Annotated Corpus for Causal Relation Extraction in Biomedical Text

Causal relation extraction (CRE) is central to biomedical text mining, but current resources often conflate causal relations with broader associations, restrict annotation to sentence-level examples, or focus mainly on explicit causal cues. This limits their usefulness for evaluating whether models can recover causal claims as they are actually expressed in biomedical text. We introduce PubMedCausal, a span-level annotated corpus for biomedical CRE built from PubMed abstracts. The corpus contains 30,000 paragraph-level rows, including 3,945 causal rows and 6,491 adjudicated cause--effect pairs. Each causal relation is annotated with full-text cause and effect spans, causality type, and sententiality, enabling evaluation of both causal detection and full-span causal extraction. We benchmark discriminative encoders and open-source generative models across detection and extraction settings. For causal detection, biomedical encoders are strongest, with PubMedBERT reaching an F_1 score of 0.7391. For span-level extraction, the best generative baseline is DeepSeek-R1-32B with few-shot prompting, reaching a Cosine Pair F_1 of 0.6765. We further test transfer learning by evaluating PubMedCausal-trained encoders on external causal relation datasets, showing that the resource supports cross-dataset evaluation. Our results show that biomedical CRE remains difficult under class imbalance, long causal spans, implicit causality, inter-sentential relations, and prompt sensitivity. Code and Data can be found here: https://github.com/josiahpaul07/PubMedCausal_Exp

  • 6 authors
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May 26

Ice Cream Doesn't Cause Drowning: Benchmarking LLMs Against Statistical Pitfalls in Causal Inference

Reliable causal inference is essential for making decisions in high-stakes areas like medicine, economics, and public policy. However, it remains unclear whether large language models (LLMs) can handle rigorous and trustworthy statistical causal inference. Current benchmarks usually involve simplified tasks. For example, these tasks might only ask LLMs to identify semantic causal relationships or draw conclusions directly from raw data. As a result, models may overlook important statistical pitfalls, such as Simpson's paradox or selection bias. This oversight limits the applicability of LLMs in the real world. To address these limitations, we propose CausalPitfalls, a comprehensive benchmark designed to rigorously evaluate the capability of LLMs in overcoming common causal inference pitfalls. Our benchmark features structured challenges across multiple difficulty levels, each paired with grading rubrics. This approach allows us to quantitatively measure both causal reasoning capabilities and the reliability of LLMs' responses. We evaluate models using two protocols: (1) direct prompting, which assesses intrinsic causal reasoning, and (2) code-assisted prompting, where models generate executable code for explicit statistical analysis. Additionally, we validate the effectiveness of this judge by comparing its scoring with assessments from human experts. Our results reveal significant limitations in current LLMs when performing statistical causal inference. The CausalPitfalls benchmark provides essential guidance and quantitative metrics to advance the development of trustworthy causal reasoning systems.

  • 9 authors
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Mar 3