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Oct 15

Clueing up LLMs with Tool-Augmented Deductive Reasoning

Despite recent advances in large language models (LLMs), performing logically consistent deductive reasoning over extended interactions remains challenging. Tasks that require integrating evidence across multiple reasoning steps, maintaining consistency with prior inferences, and updating beliefs under new constraints can surface limitations in current models while providing a useful testbed for evaluating reasoning enhancements. In this paper, we implement a text-based, multi-agent version of the classic board game Clue as an environment to evaluate multi-step, agentic deductive reasoning. In this setting, agents must infer hidden information from a sequence of observations, maintain consistency across turns, and reason over an evolving set of logical constraints. We instantiate six LLM-based agents (GPT-4o-mini and Gemini-2.5-Flash) as players that engage in turn-based gameplay; using three agents per model family, we establish baseline performance across repeated games. We then introduce a tool-augmented approach in which a structured possibility matrix converts implicit game state from generated reasoning logs into an explicit representation of remaining possibilities. The possibility matrix encodes extended-turn memory and deductive constraints, offloading these tasks from the agent. We compare this approach against the baseline to evaluate how tool augmentation supports reasoning quality and task success for autonomous agents in a strategic reasoning environment.

  • 2 authors
·
Sep 15

Share Your Attention: Transformer Weight Sharing via Matrix-based Dictionary Learning

Large language models (LLMs) have revolutionized AI applications, yet their high computational and memory demands hinder their widespread deployment. Existing compression techniques focus on intra-block optimizations (e.g. low-rank approximation, attention head pruning), while the repetitive layered structure of transformers implies significant inter-block redundancy - a dimension largely unexplored beyond key-value (KV) caching. Inspired by dictionary learning in CNNs, we propose a framework for structured weight sharing across transformer layers. Our approach decomposes attention projection matrices into shared dictionary atoms, reducing the attention module's parameters by 66.7% while achieving on-par performance. Unlike complex methods requiring distillation or architectural changes, MASA (Matrix Atom Sharing in Attention) operates as a drop-in replacement - trained with standard optimizers - and represents each layer's weights as linear combinations of shared matrix atoms. Experiments across scales (100M-700M parameters) show that MASA achieves better benchmark accuracy and perplexity than grouped-query attention (GQA), low-rank baselines and recently proposed Repeat-all-over/Sequential sharing at comparable parameter budgets. Ablation studies confirm robustness to the dictionary size and the efficacy of shared representations in capturing cross-layer statistical regularities. Extending to Vision Transformers (ViT), MASA matches performance metrics on image classification and detection tasks with 66.7% fewer attention parameters. By combining dictionary learning strategies with transformer efficiency, MASA offers a scalable blueprint for parameter-efficient models without sacrificing performance. Finally, we investigate the possibility of employing MASA on pretrained LLMs to reduce their number of parameters without experiencing any significant drop in their performance.

  • 4 authors
·
Aug 6, 2025

Π-NeSy: A Possibilistic Neuro-Symbolic Approach

In this article, we introduce a neuro-symbolic approach that combines a low-level perception task performed by a neural network with a high-level reasoning task performed by a possibilistic rule-based system. The goal is to be able to derive for each input instance the degree of possibility that it belongs to a target (meta-)concept. This (meta-)concept is connected to intermediate concepts by a possibilistic rule-based system. The probability of each intermediate concept for the input instance is inferred using a neural network. The connection between the low-level perception task and the high-level reasoning task lies in the transformation of neural network outputs modeled by probability distributions (through softmax activation) into possibility distributions. The use of intermediate concepts is valuable for the explanation purpose: using the rule-based system, the classification of an input instance as an element of the (meta-)concept can be justified by the fact that intermediate concepts have been recognized. From the technical side, our contribution consists of the design of efficient methods for defining the matrix relation and the equation system associated with a possibilistic rule-based system. The corresponding matrix and equation are key data structures used to perform inferences from a possibilistic rule-based system and to learn the values of the rule parameters in such a system according to a training data sample. Furthermore, leveraging recent results on the handling of inconsistent systems of fuzzy relational equations, an approach for learning rule parameters according to multiple training data samples is presented. Experiments carried out on the MNIST addition problems and the MNIST Sudoku puzzles problems highlight the effectiveness of our approach compared with state-of-the-art neuro-symbolic ones.

  • 2 authors
·
Apr 9, 2025

On the Parameterization and Initialization of Diagonal State Space Models

State space models (SSM) have recently been shown to be very effective as a deep learning layer as a promising alternative to sequence models such as RNNs, CNNs, or Transformers. The first version to show this potential was the S4 model, which is particularly effective on tasks involving long-range dependencies by using a prescribed state matrix called the HiPPO matrix. While this has an interpretable mathematical mechanism for modeling long dependencies, it introduces a custom representation and algorithm that can be difficult to implement. On the other hand, a recent variant of S4 called DSS showed that restricting the state matrix to be fully diagonal can still preserve the performance of the original model when using a specific initialization based on approximating S4's matrix. This work seeks to systematically understand how to parameterize and initialize such diagonal state space models. While it follows from classical results that almost all SSMs have an equivalent diagonal form, we show that the initialization is critical for performance. We explain why DSS works mathematically, by showing that the diagonal restriction of S4's matrix surprisingly recovers the same kernel in the limit of infinite state dimension. We also systematically describe various design choices in parameterizing and computing diagonal SSMs, and perform a controlled empirical study ablating the effects of these choices. Our final model S4D is a simple diagonal version of S4 whose kernel computation requires just 2 lines of code and performs comparably to S4 in almost all settings, with state-of-the-art results for image, audio, and medical time-series domains, and averaging 85\% on the Long Range Arena benchmark.

  • 4 authors
·
Jun 23, 2022

Shades of Zero: Distinguishing Impossibility from Inconceivability

Some things are impossible, but some things may be even more impossible than impossible. Levitating a feather using one's mind is impossible in our world, but fits into our intuitive theories of possible worlds, whereas levitating a feather using the number five cannot be conceived in any possible world ("inconceivable"). While prior work has examined the distinction between improbable and impossible events, there has been little empirical research on inconceivability. Here, we investigate whether people maintain a distinction between impossibility and inconceivability, and how such distinctions might be made. We find that people can readily distinguish the impossible from the inconceivable, using categorization studies similar to those used to investigate the differences between impossible and improbable (Experiment 1). However, this distinction is not explained by people's subjective ratings of event likelihood, which are near zero and indistinguishable between impossible and inconceivable event descriptions (Experiment 2). Finally, we ask whether the probabilities assigned to event descriptions by statistical language models (LMs) can be used to separate modal categories, and whether these probabilities align with people's ratings (Experiment 3). We find high-level similarities between people and LMs: both distinguish among impossible and inconceivable event descriptions, and LM-derived string probabilities predict people's ratings of event likelihood across modal categories. Our findings suggest that fine-grained knowledge about exceedingly rare events (i.e., the impossible and inconceivable) may be learned via statistical learning over linguistic forms, yet leave open the question of whether people represent the distinction between impossible and inconceivable as a difference not of degree, but of kind.

  • 3 authors
·
Feb 26, 2025

Learning Active Subspaces and Discovering Important Features with Gaussian Radial Basis Functions Neural Networks

Providing a model that achieves a strong predictive performance and is simultaneously interpretable by humans is one of the most difficult challenges in machine learning research due to the conflicting nature of these two objectives. To address this challenge, we propose a modification of the radial basis function neural network model by equipping its Gaussian kernel with a learnable precision matrix. We show that precious information is contained in the spectrum of the precision matrix that can be extracted once the training of the model is completed. In particular, the eigenvectors explain the directions of maximum sensitivity of the model revealing the active subspace and suggesting potential applications for supervised dimensionality reduction. At the same time, the eigenvectors highlight the relationship in terms of absolute variation between the input and the latent variables, thereby allowing us to extract a ranking of the input variables based on their importance to the prediction task enhancing the model interpretability. We conducted numerical experiments for regression, classification, and feature selection tasks, comparing our model against popular machine learning models, the state-of-the-art deep learning-based embedding feature selection techniques, and a transformer model for tabular data. Our results demonstrate that the proposed model does not only yield an attractive prediction performance compared to the competitors but also provides meaningful and interpretable results that potentially could assist the decision-making process in real-world applications. A PyTorch implementation of the model is available on GitHub at the following link. https://github.com/dannyzx/Gaussian-RBFNN

  • 3 authors
·
Jul 11, 2023

Algorithm-assisted discovery of an intrinsic order among mathematical constants

In recent decades, a growing number of discoveries in fields of mathematics have been assisted by computer algorithms, primarily for exploring large parameter spaces that humans would take too long to investigate. As computers and algorithms become more powerful, an intriguing possibility arises - the interplay between human intuition and computer algorithms can lead to discoveries of novel mathematical concepts that would otherwise remain elusive. To realize this perspective, we have developed a massively parallel computer algorithm that discovers an unprecedented number of continued fraction formulas for fundamental mathematical constants. The sheer number of formulas discovered by the algorithm unveils a novel mathematical structure that we call the conservative matrix field. Such matrix fields (1) unify thousands of existing formulas, (2) generate infinitely many new formulas, and most importantly, (3) lead to unexpected relations between different mathematical constants, including multiple integer values of the Riemann zeta function. Conservative matrix fields also enable new mathematical proofs of irrationality. In particular, we can use them to generalize the celebrated proof by Ap\'ery for the irrationality of zeta(3). Utilizing thousands of personal computers worldwide, our computer-supported research strategy demonstrates the power of experimental mathematics, highlighting the prospects of large-scale computational approaches to tackle longstanding open problems and discover unexpected connections across diverse fields of science.

  • 9 authors
·
Aug 22, 2023

How to Train Your HiPPO: State Space Models with Generalized Orthogonal Basis Projections

Linear time-invariant state space models (SSM) are a classical model from engineering and statistics, that have recently been shown to be very promising in machine learning through the Structured State Space sequence model (S4). A core component of S4 involves initializing the SSM state matrix to a particular matrix called a HiPPO matrix, which was empirically important for S4's ability to handle long sequences. However, the specific matrix that S4 uses was actually derived in previous work for a particular time-varying dynamical system, and the use of this matrix as a time-invariant SSM had no known mathematical interpretation. Consequently, the theoretical mechanism by which S4 models long-range dependencies actually remains unexplained. We derive a more general and intuitive formulation of the HiPPO framework, which provides a simple mathematical interpretation of S4 as a decomposition onto exponentially-warped Legendre polynomials, explaining its ability to capture long dependencies. Our generalization introduces a theoretically rich class of SSMs that also lets us derive more intuitive S4 variants for other bases such as the Fourier basis, and explains other aspects of training S4, such as how to initialize the important timescale parameter. These insights improve S4's performance to 86% on the Long Range Arena benchmark, with 96% on the most difficult Path-X task.

  • 5 authors
·
Jun 23, 2022

WorldKernel: A World Model is the Coupling Kernel of Admissible Possible Worlds

A common assumption holds that enough observational and interventional data, given to a strong enough predictor, suffices. We report a failure mode that contradicts it. Across hundreds of structural causal models, on identified quantities a strong predictor and a Bayesian baseline both succeed, but on unidentified quantities (the couplings between counterfactual worlds) the predictor collapses to a point, on 28% of models to one no valid model can produce, while the truth is an admissible interval more data never narrows. The gap is structural: prediction cannot represent uncertainty over counterfactual couplings. We cast a world model as a single positive semidefinite coupling kernel K(T,T') over admissible worlds, whose diagonal is the ordinary posterior (what a predictor recovers) and whose off-diagonal is the cross-world coupling it cannot, which every counterfactual reads. The paper is the theory of that off-diagonal. It is real: two states with identical posteriors differ on a cross-world query, and the off-diagonal is the coupling that fixes counterfactuals. It can be bounded: positive semidefiniteness is partial-identifying information the marginals lack, and enforcing it bounds counterfactuals in polynomial time where the exact response-type program is intractable. Logical structure sharpens it: ontology axioms tighten the bound by up to a third, propagating to couplings they never touch. It can be acquired: targeted scars, constraints learned from encountered infeasibilities, close the gap several times faster than untargeted ones. Its full reconstruction is approximate counting of the admissible worlds, tractable below the Sly-Sun threshold and inapproximable above; we do not claim to beat the worst case.

  • 1 authors
·
Jun 8

Deep Probability Estimation

Reliable probability estimation is of crucial importance in many real-world applications where there is inherent (aleatoric) uncertainty. Probability-estimation models are trained on observed outcomes (e.g. whether it has rained or not, or whether a patient has died or not), because the ground-truth probabilities of the events of interest are typically unknown. The problem is therefore analogous to binary classification, with the difference that the objective is to estimate probabilities rather than predicting the specific outcome. This work investigates probability estimation from high-dimensional data using deep neural networks. There exist several methods to improve the probabilities generated by these models but they mostly focus on model (epistemic) uncertainty. For problems with inherent uncertainty, it is challenging to evaluate performance without access to ground-truth probabilities. To address this, we build a synthetic dataset to study and compare different computable metrics. We evaluate existing methods on the synthetic data as well as on three real-world probability estimation tasks, all of which involve inherent uncertainty: precipitation forecasting from radar images, predicting cancer patient survival from histopathology images, and predicting car crashes from dashcam videos. We also give a theoretical analysis of a model for high-dimensional probability estimation which reproduces several of the phenomena evinced in our experiments. Finally, we propose a new method for probability estimation using neural networks, which modifies the training process to promote output probabilities that are consistent with empirical probabilities computed from the data. The method outperforms existing approaches on most metrics on the simulated as well as real-world data.

  • 11 authors
·
Nov 20, 2021

ACQUIRED: A Dataset for Answering Counterfactual Questions In Real-Life Videos

Multimodal counterfactual reasoning is a vital yet challenging ability for AI systems. It involves predicting the outcomes of hypothetical circumstances based on vision and language inputs, which enables AI models to learn from failures and explore hypothetical scenarios. Despite its importance, there are only a few datasets targeting the counterfactual reasoning abilities of multimodal models. Among them, they only cover reasoning over synthetic environments or specific types of events (e.g. traffic collisions), making them hard to reliably benchmark the model generalization ability in diverse real-world scenarios and reasoning dimensions. To overcome these limitations, we develop a video question answering dataset, ACQUIRED: it consists of 3.9K annotated videos, encompassing a wide range of event types and incorporating both first and third-person viewpoints, which ensures a focus on real-world diversity. In addition, each video is annotated with questions that span three distinct dimensions of reasoning, including physical, social, and temporal, which can comprehensively evaluate the model counterfactual abilities along multiple aspects. We benchmark our dataset against several state-of-the-art language-only and multimodal models and experimental results demonstrate a significant performance gap (>13%) between models and humans. The findings suggest that multimodal counterfactual reasoning remains an open challenge and ACQUIRED is a comprehensive and reliable benchmark for inspiring future research in this direction.

  • 8 authors
·
Nov 2, 2023

The Numerical Linear Algebra of Large Language Models

Numerical Linear Algebra (NLA) has consistently played a vital role in advancing science by providing tools to solve fundamental problems encountered in scientific and engineering applications. Over the decades, it has continually evolved to meet the demands driven by successive waves of scientific discovery. For instance, during the 1950s and 1960s, substantial efforts were devoted to developing methods for solving eigenvalue problems that emerged from the rapidly growing field of aerodynamics. This led to the discovery of the LR and QR algorithms. Later the attention turned to the solution of sparse linear systems that were common in applications like computational aerodynamics. Today we are experiencing yet another wave of major scientific advancement and NLA is once more at the heart of its development. This Machine Learning (ML) wave is proving to be utterly disruptive in science and engineering. Many tools in ML particularly Large Language Models (LLMs) are grounded in matrix and tensor methods. As we are approaching Artificial General Intelligence (AGI), it is clear that matrix methods will be called to play an even more significant role. For the numerical linear practitioner the speed of the current change makes it particularly challenging to adapt. This is a survey article that centers on machine learning techniques, with a particular focus on large language models. It has two main objectives. The first is to clarify the core concepts behind Large Language Models in a manner accessible to specialists in numerical methods. The second is to examine the key Numerical Linear Algebra concepts employed by LLM techniques, while also highlighting several significant recent contributions of NLA to the field.

The Impossible Test: A 2024 Unsolvable Dataset and A Chance for an AGI Quiz

This research introduces a novel evaluation framework designed to assess large language models' (LLMs) ability to acknowledge uncertainty on 675 fundamentally unsolvable problems. Using a curated dataset of graduate-level grand challenge questions with intentionally unknowable answers, we evaluated twelve state-of-the-art LLMs, including both open and closed-source models, on their propensity to admit ignorance rather than generate plausible but incorrect responses. The best models scored in 62-68% accuracy ranges for admitting the problem solution was unknown in fields ranging from biology to philosophy and mathematics. We observed an inverse relationship between problem difficulty and model accuracy, with GPT-4 demonstrating higher rates of uncertainty acknowledgment on more challenging problems (35.8%) compared to simpler ones (20.0%). This pattern indicates that models may be more prone to generate speculative answers when problems appear more tractable. The study also revealed significant variations across problem categories, with models showing difficulty in acknowledging uncertainty in invention and NP-hard problems while performing relatively better on philosophical and psychological challenges. These results contribute to the growing body of research on artificial general intelligence (AGI) assessment by highlighting the importance of uncertainty recognition as a critical component of future machine intelligence evaluation. This impossibility test thus extends previous theoretical frameworks for universal intelligence testing by providing empirical evidence of current limitations in LLMs' ability to recognize their own knowledge boundaries, suggesting new directions for improving model training architectures and evaluation approaches.

  • 2 authors
·
Nov 19, 2024 3

MATRIX: A Multimodal Benchmark and Post-Training Framework for Materials Science

Scientific reasoning in materials science requires integrating multimodal experimental evidence with underlying physical theory. Existing benchmarks make it difficult to assess whether incorporating visual experimental data during post-training improves mechanism-grounded explanation reasoning beyond text-only supervision. We introduce MATRIX, a multimodal benchmark for materials science reasoning that evaluates foundational theory, research-level reasoning, and the interpretation of real experimental artifacts across multiple characterization modalities. Using MATRIX as a controlled diagnostic, we isolate the effect of visual grounding by comparing post-training on structured materials science text alone with post-training that incorporates paired experimental images. Despite using relatively small amounts of multimodal data, visual supervision improves experimental interpretation by 10-25% and yields 5-16% gains on text-only scientific reasoning tasks. Our results demonstrate that these improvements rely on correct image-text alignment during post-training, highlighting cross-modal representational transfer. We also observe consistent improvements on ScienceQA and PubMedQA, demonstrating that the benefits of structured multimodal post-training extend beyond materials science. The MATRIX dataset is available at https://huggingface.co/datasets/radical-ai/MATRIX and the model at https://huggingface.co/radical-ai/MATRIX-PT.

  • 5 authors
·
Jan 30

Classification of BCI-EEG based on augmented covariance matrix

Objective: Electroencephalography signals are recorded as a multidimensional dataset. We propose a new framework based on the augmented covariance extracted from an autoregressive model to improve motor imagery classification. Methods: From the autoregressive model can be derived the Yule-Walker equations, which show the emergence of a symmetric positive definite matrix: the augmented covariance matrix. The state-of the art for classifying covariance matrices is based on Riemannian Geometry. A fairly natural idea is therefore to extend the standard approach using these augmented covariance matrices. The methodology for creating the augmented covariance matrix shows a natural connection with the delay embedding theorem proposed by Takens for dynamical systems. Such an embedding method is based on the knowledge of two parameters: the delay and the embedding dimension, respectively related to the lag and the order of the autoregressive model. This approach provides new methods to compute the hyper-parameters in addition to standard grid search. Results: The augmented covariance matrix performed noticeably better than any state-of-the-art methods. We will test our approach on several datasets and several subjects using the MOABB framework, using both within-session and cross-session evaluation. Conclusion: The improvement in results is due to the fact that the augmented covariance matrix incorporates not only spatial but also temporal information, incorporating nonlinear components of the signal through an embedding procedure, which allows the leveraging of dynamical systems algorithms. Significance: These results extend the concepts and the results of the Riemannian distance based classification algorithm.

  • 2 authors
·
Feb 9, 2023

Quantifying the Uncertainty of Foundation Models with Singular Value Ensembles

Foundation models have become a dominant paradigm in machine learning, achieving remarkable performance across diverse tasks through large-scale pretraining. However, they often yield overconfident, uncalibrated predictions. The standard approach to quantifying epistemic uncertainty are ensembles of multiple independently trained models. But their computational cost scales linearly with ensemble size, making them impractical for large foundation models. We propose Singular Value Ensemble (SVE), a parameter-efficient implicit ensembling method. SVE builds on a simple, but powerful core assumption: namely, that the singular vectors of the weight matrices correspond to meaningful directions in the representation space. If the singular vectors are indeed meaningful (orthogonal) "knowledge directions", then a model ensemble can be obtained by modulating only how strongly each direction contributes to the output. Rather than learning new parameters for each ensemble member, we freeze the singular vectors and only train per-member singular values that rescale the contribution of each direction in that shared knowledge basis. Ensemble diversity emerges naturally during joint training as stochastic initialization and random batch sampling cause different members to converge to different combinations of the same underlying knowledge. SVE performs comparable to an explicit ensemble, while increasing the parameter count of the base model by <1%, making principled uncertainty estimation accessible in resource-constrained settings. We validate SVE on NLP and vision tasks with various different backbones and show that it improves calibration while maintaining predictive accuracy.

  • 5 authors
·
May 28

MTQA:Matrix of Thought for Enhanced Reasoning in Complex Question Answering

Complex Question Answering (QA) is a fundamental and challenging task in NLP. While large language models (LLMs) exhibit impressive performance in QA, they suffer from significant performance degradation when facing complex and abstract QA tasks due to insufficient reasoning capabilities. Works such as Chain-of-Thought (CoT) and Tree-of-Thought (ToT) aim to enhance LLMs' reasoning abilities, but they face issues such as in-layer redundancy in tree structures and single paths in chain structures. Although some studies utilize Retrieval-Augmented Generation (RAG) methods to assist LLMs in reasoning, the challenge of effectively utilizing large amounts of information involving multiple entities and hops remains critical. To address this, we propose the Matrix of Thought (MoT), a novel and efficient LLM thought structure. MoT explores the problem in both horizontal and vertical dimensions through the "column-cell communication" mechanism, enabling LLMs to actively engage in multi-strategy and deep-level thinking, reducing redundancy within the column cells and enhancing reasoning capabilities. Furthermore, we develop a fact-correction mechanism by constructing knowledge units from retrieved knowledge graph triples and raw text to enhance the initial knowledge for LLM reasoning and correct erroneous answers. This leads to the development of an efficient and accurate QA framework (MTQA). Experimental results show that our framework outperforms state-of-the-art methods on four widely-used datasets in terms of F1 and EM scores, with reasoning time only 14.4\% of the baseline methods, demonstrating both its efficiency and accuracy. The code for this framework is available at https://github.com/lyfiter/mtqa.

  • 4 authors
·
Sep 4, 2025

MARS: Benchmarking the Metaphysical Reasoning Abilities of Language Models with a Multi-task Evaluation Dataset

To enable Large Language Models (LLMs) to function as conscious agents with generalizable reasoning capabilities, it is crucial that they possess the reasoning ability to comprehend situational changes (transitions) in distribution triggered by environmental factors or actions from other agents. Despite its fundamental significance, this ability remains underexplored due to the complexity of modeling infinite possible changes in an event and their associated distributions, coupled with the lack of benchmark data with situational transitions. Addressing these gaps, we propose a novel formulation of reasoning with distributional changes as a three-step discriminative process, termed as MetAphysical ReaSoning. We then introduce the first-ever benchmark, MARS, comprising three tasks corresponding to each step. These tasks systematically assess LLMs' capabilities in reasoning the plausibility of (i) changes in actions, (ii) states caused by changed actions, and (iii) situational transitions driven by changes in action. Extensive evaluations with 20 (L)LMs of varying sizes and methods indicate that all three tasks in this process pose significant challenges, even for state-of-the-art LLMs and LMs after fine-tuning. Further analyses reveal potential causes for the underperformance of LLMs and demonstrate that pre-training them on large-scale conceptualization taxonomies can potentially enhance their metaphysical reasoning capabilities. Our data and models are publicly accessible at https://github.com/HKUST-KnowComp/MARS.

  • 2 authors
·
Jun 4, 2024

Cognitively Inspired Energy-Based World Models

One of the predominant methods for training world models is autoregressive prediction in the output space of the next element of a sequence. In Natural Language Processing (NLP), this takes the form of Large Language Models (LLMs) predicting the next token; in Computer Vision (CV), this takes the form of autoregressive models predicting the next frame/token/pixel. However, this approach differs from human cognition in several respects. First, human predictions about the future actively influence internal cognitive processes. Second, humans naturally evaluate the plausibility of predictions regarding future states. Based on this capability, and third, by assessing when predictions are sufficient, humans allocate a dynamic amount of time to make a prediction. This adaptive process is analogous to System 2 thinking in psychology. All these capabilities are fundamental to the success of humans at high-level reasoning and planning. Therefore, to address the limitations of traditional autoregressive models lacking these human-like capabilities, we introduce Energy-Based World Models (EBWM). EBWM involves training an Energy-Based Model (EBM) to predict the compatibility of a given context and a predicted future state. In doing so, EBWM enables models to achieve all three facets of human cognition described. Moreover, we developed a variant of the traditional autoregressive transformer tailored for Energy-Based models, termed the Energy-Based Transformer (EBT). Our results demonstrate that EBWM scales better with data and GPU Hours than traditional autoregressive transformers in CV, and that EBWM offers promising early scaling in NLP. Consequently, this approach offers an exciting path toward training future models capable of System 2 thinking and intelligently searching across state spaces.

  • 6 authors
·
Jun 13, 2024 7

The Spectral Neuron

As machine learned models increase in complexity and expressive power, features of simpler models, such as intrinsic coefficient transparency and control over the shape of the modeled function are lost. On the one edge of the spectrum we have simple linear models that possess coefficient transparency, but have a limited expressive power. On the other edge we have neural networks, that have expressive power that improves with scaling, but are mostly opaque. In this work we develop the spectral neuron concept: a scalar model given by f(x)=λ_k (A_0 + A_1 x + ... + A_n x_n), with learned real symmetric matrices A_0, ..., A_n. The input enters the model through an affine matrix function, but the prediction is obtained by reading one of its eigenvalues. Thus, the model is nonlinear, but the source of nonlinearity is still mathematically explicit. This gives us a useful middle ground: the model can become more expressive as the matrix dimension grows, while retaining coefficient transparency through the learned matrices. For example, extremal eigenvalues yield convex or concave functions, semidefinite constraints on the coefficient matrices impose monotonicity, and the associated eigenspaces characterize local feature influence. We study coefficient transparency, feature-influence bounds, and shape-control properties of this model family, and then test whether it can be learned and scaled in practice. We develop a systematic study of this model family, bringing together spectral results from several mathematical literatures to characterize its expressivity, coefficient transparency, feature influence, and shape-control properties. Code available at https://github.com/alexshtf/spectral_neuron_paper.

  • 1 authors
·
Aug 15

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

One Proposal for Every Margin: Zero-Shot Amortized Sequential Importance Sampling for Binary Matrices

In ecology, psychometrics, and the analysis of social and financial networks, binary matrices are often analyzed conditional on their observed row and column sums, which restricts the problem to a finite sample space of matrices with the same margins. Two fundamental problems are to count this space and to sample uniformly from it. Sequential importance sampling (SIS) addresses both with independent weighted samples and an unbiased count estimator, but its efficiency depends critically on the proposal distribution. Existing proposals are analytically designed, and their accuracy can vary substantially with the margins. We show that the ideal SIS proposal, under which every weight equals the count and the variance vanishes, is exactly the policy of a generative flow network (GFlowNet) with unit reward on every matrix that has the given margins. We therefore propose MarginFlow, a framework that turns the design of the proposal into a learning problem and amortizes it across margins by exploiting their self-similarity. Every partial matrix is itself an instance with reduced margins, so one set transformer that reads the remaining margins serves every margin. We train MarginFlow on a pool of 1904 margins and evaluate it zero-shot on 1190 held-out margins, synthetic and real, from 3times3 to 870times6. On 1187 of the 1190 margins it matches or beats the best of 31 analytically designed configurations, chosen post hoc for each margin, and its median effective sample fraction is 99.8%. On the 56 margins where that best loses more than one nat of effective sample size, MarginFlow wins every one and raises the median effective sample fraction from 10.3% to 94.1%.

Discovering Hierarchical Latent Capabilities of Language Models via Causal Representation Learning

Faithful evaluation of language model capabilities is crucial for deriving actionable insights that can inform model development. However, rigorous causal evaluations in this domain face significant methodological challenges, including complex confounding effects and prohibitive computational costs associated with extensive retraining. To tackle these challenges, we propose a causal representation learning framework wherein observed benchmark performance is modeled as a linear transformation of a few latent capability factors. Crucially, these latent factors are identified as causally interrelated after appropriately controlling for the base model as a common confounder. Applying this approach to a comprehensive dataset encompassing over 1500 models evaluated across six benchmarks from the Open LLM Leaderboard, we identify a concise three-node linear causal structure that reliably explains the observed performance variations. Further interpretation of this causal structure provides substantial scientific insights beyond simple numerical rankings: specifically, we reveal a clear causal direction starting from general problem-solving capabilities, advancing through instruction-following proficiency, and culminating in mathematical reasoning ability. Our results underscore the essential role of carefully controlling base model variations during evaluation, a step critical to accurately uncovering the underlying causal relationships among latent model capabilities.

  • 4 authors
·
Jun 12, 2025 2

Math Agents: Computational Infrastructure, Mathematical Embedding, and Genomics

The advancement in generative AI could be boosted with more accessible mathematics. Beyond human-AI chat, large language models (LLMs) are emerging in programming, algorithm discovery, and theorem proving, yet their genomics application is limited. This project introduces Math Agents and mathematical embedding as fresh entries to the "Moore's Law of Mathematics", using a GPT-based workflow to convert equations from literature into LaTeX and Python formats. While many digital equation representations exist, there's a lack of automated large-scale evaluation tools. LLMs are pivotal as linguistic user interfaces, providing natural language access for human-AI chat and formal languages for large-scale AI-assisted computational infrastructure. Given the infinite formal possibility spaces, Math Agents, which interact with math, could potentially shift us from "big data" to "big math". Math, unlike the more flexible natural language, has properties subject to proof, enabling its use beyond traditional applications like high-validation math-certified icons for AI alignment aims. This project aims to use Math Agents and mathematical embeddings to address the ageing issue in information systems biology by applying multiscalar physics mathematics to disease models and genomic data. Generative AI with episodic memory could help analyse causal relations in longitudinal health records, using SIR Precision Health models. Genomic data is suggested for addressing the unsolved Alzheimer's disease problem.

  • 4 authors
·
Jul 4, 2023

Modeling Open-World Cognition as On-Demand Synthesis of Probabilistic Models

When faced with novel situations, people are able to marshal relevant considerations from a wide range of background knowledge and put these to use in inferences and predictions. What permits us to draw in globally relevant information and reason over it coherently? Here, we explore the hypothesis that people use a combination of distributed and symbolic representations to construct bespoke mental models tailored to novel situations. We propose a computational implementation of this idea -- a ``Model Synthesis Architecture'' (MSA) -- using language models to implement global relevance-based retrieval and model synthesis and probabilistic programs to implement bespoke, coherent world models. We evaluate our MSA as a model of human judgments on a novel reasoning dataset. The dataset -- built around a `Model Olympics` domain of sports vignettes -- tests models' capacity for human-like, open-ended reasoning by requiring (i) judgments about novel causal structures described in language; (ii) drawing on large bodies of background knowledge; and (iii) doing both in light of observations that introduce arbitrary novel variables. Our MSA approach captures human judgments better than language model-only baselines, under both direct and chain-of-thought generations from the LM that supports model synthesis. These results suggest that MSAs can be implemented in a way that mirrors people's ability to deliver locally coherent reasoning over globally relevant variables, offering a path to understanding and replicating human reasoning in open-ended domains.

  • 11 authors
·
Jul 16, 2025

Identifiability in Two-Layer Sparse Matrix Factorization

Sparse matrix factorization is the problem of approximating a matrix Z by a product of J sparse factors X^{(J)} X^{(J-1)} ldots X^{(1)}. This paper focuses on identifiability issues that appear in this problem, in view of better understanding under which sparsity constraints the problem is well-posed. We give conditions under which the problem of factorizing a matrix into two sparse factors admits a unique solution, up to unavoidable permutation and scaling equivalences. Our general framework considers an arbitrary family of prescribed sparsity patterns, allowing us to capture more structured notions of sparsity than simply the count of nonzero entries. These conditions are shown to be related to essential uniqueness of exact matrix decomposition into a sum of rank-one matrices, with structured sparsity constraints. In particular, in the case of fixed-support sparse matrix factorization, we give a general sufficient condition for identifiability based on rank-one matrix completability, and we derive from it a completion algorithm that can verify if this sufficient condition is satisfied, and recover the entries in the two sparse factors if this is the case. A companion paper further exploits these conditions to derive identifiability properties and theoretically sound factorization methods for multi-layer sparse matrix factorization with support constraints associated to some well-known fast transforms such as the Hadamard or the Discrete Fourier Transforms.

  • 3 authors
·
Nov 16, 2021

The Consciousness Prior

A new prior is proposed for learning representations of high-level concepts of the kind we manipulate with language. This prior can be combined with other priors in order to help disentangling abstract factors from each other. It is inspired by cognitive neuroscience theories of consciousness, seen as a bottleneck through which just a few elements, after having been selected by attention from a broader pool, are then broadcast and condition further processing, both in perception and decision-making. The set of recently selected elements one becomes aware of is seen as forming a low-dimensional conscious state. This conscious state is combining the few concepts constituting a conscious thought, i.e., what one is immediately conscious of at a particular moment. We claim that this architectural and information-processing constraint corresponds to assumptions about the joint distribution between high-level concepts. To the extent that these assumptions are generally true (and the form of natural language seems consistent with them), they can form a useful prior for representation learning. A low-dimensional thought or conscious state is analogous to a sentence: it involves only a few variables and yet can make a statement with very high probability of being true. This is consistent with a joint distribution (over high-level concepts) which has the form of a sparse factor graph, i.e., where the dependencies captured by each factor of the factor graph involve only very few variables while creating a strong dip in the overall energy function. The consciousness prior also makes it natural to map conscious states to natural language utterances or to express classical AI knowledge in a form similar to facts and rules, albeit capturing uncertainty as well as efficient search mechanisms implemented by attention mechanisms.

  • 1 authors
·
Sep 25, 2017

Artificial Entanglement in the Fine-Tuning of Large Language Models

Large language models (LLMs) can be adapted to new tasks using parameter-efficient fine-tuning (PEFT) methods that modify only a small number of trainable parameters, often through low-rank updates. In this work, we adopt a quantum-information-inspired perspective to understand their effectiveness. From this perspective, low-rank parameterizations naturally correspond to low-dimensional Matrix Product States (MPS) representations, which enable entanglement-based characterizations of parameter structure. Thereby, we term and measure "Artificial Entanglement", defined as the entanglement entropy of the parameters in artificial neural networks (in particular the LLMs). We first study the representative low-rank adaptation (LoRA) PEFT method, alongside full fine-tuning (FFT), using LLaMA models at the 1B and 8B scales trained on the Tulu3 and OpenThoughts3 datasets, and uncover: (i) Internal artificial entanglement in the updates of query and value projection matrices in LoRA follows a volume law with a central suppression (termed as the "Entanglement Valley"), which is sensitive to hyper-parameters and is distinct from that in FFT; (ii) External artificial entanglement in attention matrices, corresponding to token-token correlations in representation space, follows an area law with logarithmic corrections and remains robust to LoRA hyper-parameters and training steps. Drawing a parallel to the No-Hair Theorem in black hole physics, we propose that although LoRA and FFT induce distinct internal entanglement signatures, such differences do not manifest in the attention outputs, suggesting a "no-hair" property that results in the effectiveness of low rank updates. We further provide theoretical support based on random matrix theory, and extend our analysis to an MPS Adaptation PEFT method, which exhibits qualitatively similar behaviors.

  • 6 authors
·
Jan 11 2

Quantum complexity resource in Gaussian boson sampling: Core structure of the semidefinite program

We present a rigorous analysis of the algebraic and geometric structure of the quantum complexity resource of a system of bosonic modes in Gaussian boson sampling. This resource underlies the quantum advantage of the system: its photon-counting statistics require the evaluation of a hafnian of the resource covariance matrix, and that computation is #P-hard. The resource covariance matrix is the solution of a semidefinite program that extracts the minimum-trace physical quantum part of the total covariance matrix; the complementary part is positive semidefinite and can therefore be simulated classically. Earlier work characterized this resource only through the trace of the quantum part, equal to its photon number. We characterize the optimizer itself, as a quantum state and as a geometric object, beyond the scalar given by its trace. We prove that it is a unique pure Gaussian state and construct an explicit oracle map, obeying an algebraic Riccati identity, that reconstructs the resource. We prove that the full problem compresses exactly onto the active symplectic sector that the dual program support generates. The passive-diagonalizable states are solved in closed form, the first explicit solvable class, and the whole program is shown to be equivalent to a minimization over the symplectic group, that is, over the Siegel upper half-space. Together these results establish that the program determines a canonical localized pure Gaussian component of the resource, and they provide the structural foundation for its detailed analysis.

  • 2 authors
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Jun 28

Reading and Steering Representations of Materials-Science Mechanisms in an Open-Weight Language Model

Large language models can answer scientific questions, yet a correct output does not reveal whether the model represents or uses the governing physics. Here we show that materials science mechanism information in the open-weight google/gemma-4-E4B-it model has three experimentally separable forms: concepts are readable in individual hidden states, constitutive orientation is carried by controlled transformations between states, and selected internal representations causally control engineering answers. We combine matched direct and Jacobian vocabulary readouts, option-free state geometry, a 60-law counterfactual benchmark and causal interventions. In 50 held-out materials descriptions, three independently fitted Jacobian lenses reproduced concept ranks, and target-free word sets from both readouts enabled blinded identification of 9 of 10 mechanism families. A separate 72-prompt benchmark produced mechanism-specific hidden-state neighborhoods, but an exact graph audit showed that this apparent physical organization was equally explained by numerical comparison. We therefore compared otherwise identical prompts in which only the direction of the physical input was reversed, asking whether the resulting hidden-state movement followed the supplied constitutive law. These state transformations ordered direct, physically neutral and inverse laws across 60 frozen relations and correctly oriented 39 of 40 directional laws, whereas lexical controls were near chance. Bidirectional interventions shifted answer probabilities toward or away from the physically appropriate outcome across all 12 matched cases, while counterfactual state patches transferred opposing decision signals across mechanisms and answer formats. Physical relationships were therefore more visible in controlled state changes than in absolute states alone.

InterMT: Multi-Turn Interleaved Preference Alignment with Human Feedback

As multimodal large models (MLLMs) continue to advance across challenging tasks, a key question emerges: What essential capabilities are still missing? A critical aspect of human learning is continuous interaction with the environment -- not limited to language, but also involving multimodal understanding and generation. To move closer to human-level intelligence, models must similarly support multi-turn, multimodal interaction. In particular, they should comprehend interleaved multimodal contexts and respond coherently in ongoing exchanges. In this work, we present an initial exploration through the InterMT -- the first preference dataset for multi-turn multimodal interaction, grounded in real human feedback. In this exploration, we particularly emphasize the importance of human oversight, introducing expert annotations to guide the process, motivated by the fact that current MLLMs lack such complex interactive capabilities. InterMT captures human preferences at both global and local levels into nine sub-dimensions, consists of 15.6k prompts, 52.6k multi-turn dialogue instances, and 32.4k human-labeled preference pairs. To compensate for the lack of capability for multi-modal understanding and generation, we introduce an agentic workflow that leverages tool-augmented MLLMs to construct multi-turn QA instances. To further this goal, we introduce InterMT-Bench to assess the ability of MLLMs in assisting judges with multi-turn, multimodal tasks. We demonstrate the utility of \InterMT through applications such as judge moderation and further reveal the multi-turn scaling law of judge model. We hope the open-source of our data can help facilitate further research on aligning current MLLMs to the next step. Our project website can be found at https://pku-intermt.github.io .

  • 15 authors
·
May 29, 2025

Representational Capacity: Geometric Limits on Feature Representation in Transformer Language Models

Model dimension (d_{model}) is a fundamental hyperparameter in transformer language models, yet its role in setting the geometric limits of feature representation remains under-explored. Grounded in the Linear Representation and Superposition Hypotheses - which propose that models encode features as near-orthogonal directions in latent space - we develop a framework for estimating how many such directions a model can support. We first establish the embedding matrix as a measurable proxy for near-orthogonality constraints across the latent space: the boundary between meaningful token relationships and incidental similarity in the pairwise cosine similarity distribution gives a concrete estimate of the model's accepted deviation varepsilon from perfect orthogonality. Applying this metric across dozens of open-source models reveals two classes: models with high varepsilon whose embeddings lack near-orthogonal structure, and models with low varepsilon that maintain it. We then show that the standard Johnson-Lindenstrauss lemma greatly underestimates the packing efficiency of trained representations, and derive an adjusted capacity formula in which the number of near-orthogonal directions depends on the ratio of vectors to dimensions (k/d) rather than the raw count - a single modification that cuts prediction error by two orders of magnitude with no extra parameters. Combining these results, we define representational capacity as an upper bound on the number of distinguishable directions available for features and embeddings in a model's latent space. Capacity is exponentially sensitive to varepsilon, and larger models favor tighter orthogonality constraints over maximizing raw capacity - a pattern compatible with several explanations (a stability-capacity trade-off, a ceiling on usable concepts, or confounds with model scale) that we leave to future work.

  • 1 authors
·
May 31

Introduction to Machine Learning

This book introduces the mathematical foundations and techniques that lead to the development and analysis of many of the algorithms that are used in machine learning. It starts with an introductory chapter that describes notation used throughout the book and serve at a reminder of basic concepts in calculus, linear algebra and probability and also introduces some measure theoretic terminology, which can be used as a reading guide for the sections that use these tools. The introductory chapters also provide background material on matrix analysis and optimization. The latter chapter provides theoretical support to many algorithms that are used in the book, including stochastic gradient descent, proximal methods, etc. After discussing basic concepts for statistical prediction, the book includes an introduction to reproducing kernel theory and Hilbert space techniques, which are used in many places, before addressing the description of various algorithms for supervised statistical learning, including linear methods, support vector machines, decision trees, boosting, or neural networks. The subject then switches to generative methods, starting with a chapter that presents sampling methods and an introduction to the theory of Markov chains. The following chapter describe the theory of graphical models, an introduction to variational methods for models with latent variables, and to deep-learning based generative models. The next chapters focus on unsupervised learning methods, for clustering, factor analysis and manifold learning. The final chapter of the book is theory-oriented and discusses concentration inequalities and generalization bounds.

  • 1 authors
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Sep 4, 2024