Frank Hutter

Salih Bora Ozturk, Alexander Pfefferle, Frank Hutter

Pretraining cost is a major bottleneck for research on tabular foundation models, slowing the iteration cycle for new architectures, priors, and optimization ideas. Yet the community lacks a simple way to compare and accumulate pretraining speedups. We introduce a community speedrun for nanoTabPFN: contributors modify a single-file training script and compete to reach a fixed downstream ROC AUC target on subsampled TabArena using one NVIDIA L40S GPU. The current best record reaches the target in 0.92 minutes, an 81x speedup over the 74.32 minute baseline while using 22x fewer synthetic datasets. The speedrun format provides a simple protocol for the community to add, verify, and stack pretraining improvements, with the leaderboard open to contributions. Code and records are available at https://github.com/borawhocodess/modded-nanotabpfn.

Noah Hollmann, Samuel Müller, Katharina Eggensperger et al.

We present TabPFN, a trained Transformer that can do supervised classification for small tabular datasets in less than a second, needs no hyperparameter tuning and is competitive with state-of-the-art classification methods. TabPFN performs in-context learning (ICL), it learns to make predictions using sequences of labeled examples (x, f(x)) given in the input, without requiring further parameter updates. TabPFN is fully entailed in the weights of our network, which accepts training and test samples as a set-valued input and yields predictions for the entire test set in a single forward pass. TabPFN is a Prior-Data Fitted Network (PFN) and is trained offline once, to approximate Bayesian inference on synthetic datasets drawn from our prior. This prior incorporates ideas from causal reasoning: It entails a large space of structural causal models with a preference for simple structures. On the 18 datasets in the OpenML-CC18 suite that contain up to 1 000 training data points, up to 100 purely numerical features without missing values, and up to 10 classes, we show that our method clearly outperforms boosted trees and performs on par with complex state-of-the-art AutoML systems with up to 230$\times$ speedup. This increases to a 5 700$\times$ speedup when using a GPU. We also validate these results on an additional 67 small numerical datasets from OpenML. We provide all our code, the trained TabPFN, an interactive browser demo and a Colab notebook at https://github.com/automl/TabPFN.

Colin White, Mahmoud Safari, Rhea Sukthanker et al.

In the past decade, advances in deep learning have resulted in breakthroughs in a variety of areas, including computer vision, natural language understanding, speech recognition, and reinforcement learning. Specialized, high-performing neural architectures are crucial to the success of deep learning in these areas. Neural architecture search (NAS), the process of automating the design of neural architectures for a given task, is an inevitable next step in automating machine learning and has already outpaced the best human-designed architectures on many tasks. In the past few years, research in NAS has been progressing rapidly, with over 1000 papers released since 2020 (Deng and Lindauer, 2021). In this survey, we provide an organized and comprehensive guide to neural architecture search. We give a taxonomy of search spaces, algorithms, and speedup techniques, and we discuss resources such as benchmarks, best practices, other surveys, and open-source libraries.

Arjun Krishnakumar, Colin White, Arber Zela et al.

Zero-cost proxies (ZC proxies) are a recent architecture performance prediction technique aiming to significantly speed up algorithms for neural architecture search (NAS). Recent work has shown that these techniques show great promise, but certain aspects, such as evaluating and exploiting their complementary strengths, are under-studied. In this work, we create NAS-Bench-Suite: we evaluate 13 ZC proxies across 28 tasks, creating by far the largest dataset (and unified codebase) for ZC proxies, enabling orders-of-magnitude faster experiments on ZC proxies, while avoiding confounding factors stemming from different implementations. To demonstrate the usefulness of NAS-Bench-Suite, we run a large-scale analysis of ZC proxies, including a bias analysis, and the first information-theoretic analysis which concludes that ZC proxies capture substantial complementary information. Motivated by these findings, we present a procedure to improve the performance of ZC proxies by reducing biases such as cell size, and we also show that incorporating all 13 ZC proxies into the surrogate models used by NAS algorithms can improve their predictive performance by up to 42%. Our code and datasets are available at https://github.com/automl/naslib/tree/zerocost.

Samuel Dooley, Rhea Sanjay Sukthanker, John P. Dickerson et al.

Face recognition systems are widely deployed in safety-critical applications, including law enforcement, yet they exhibit bias across a range of socio-demographic dimensions, such as gender and race. Conventional wisdom dictates that model biases arise from biased training data. As a consequence, previous works on bias mitigation largely focused on pre-processing the training data, adding penalties to prevent bias from effecting the model during training, or post-processing predictions to debias them, yet these approaches have shown limited success on hard problems such as face recognition. In our work, we discover that biases are actually inherent to neural network architectures themselves. Following this reframing, we conduct the first neural architecture search for fairness, jointly with a search for hyperparameters. Our search outputs a suite of models which Pareto-dominate all other high-performance architectures and existing bias mitigation methods in terms of accuracy and fairness, often by large margins, on the two most widely used datasets for face identification, CelebA and VGGFace2. Furthermore, these models generalize to other datasets and sensitive attributes. We release our code, models and raw data files at https://github.com/dooleys/FR-NAS.

René Sass, Eddie Bergman, André Biedenkapp et al.

Automated Machine Learning (AutoML) is used more than ever before to support users in determining efficient hyperparameters, neural architectures, or even full machine learning pipelines. However, users tend to mistrust the optimization process and its results due to a lack of transparency, making manual tuning still widespread. We introduce DeepCAVE, an interactive framework to analyze and monitor state-of-the-art optimization procedures for AutoML easily and ad hoc. By aiming for full and accessible transparency, DeepCAVE builds a bridge between users and AutoML and contributes to establishing trust. Our framework's modular and easy-to-extend nature provides users with automatically generated text, tables, and graphic visualizations. We show the value of DeepCAVE in an exemplary use-case of outlier detection, in which our framework makes it easy to identify problems, compare multiple runs and interpret optimization processes. The package is freely available on GitHub https://github.com/automl/DeepCAVE.

Simon Schrodi, Danny Stoll, Binxin Ru et al.

The discovery of neural architectures from simple building blocks is a long-standing goal of Neural Architecture Search (NAS). Hierarchical search spaces are a promising step towards this goal but lack a unifying search space design framework and typically only search over some limited aspect of architectures. In this work, we introduce a unifying search space design framework based on context-free grammars that can naturally and compactly generate expressive hierarchical search spaces that are 100s of orders of magnitude larger than common spaces from the literature. By enhancing and using their properties, we effectively enable search over the complete architecture and can foster regularity. Further, we propose an efficient hierarchical kernel design for a Bayesian Optimization search strategy to efficiently search over such huge spaces. We demonstrate the versatility of our search space design framework and show that our search strategy can be superior to existing NAS approaches. Code is available at https://github.com/automl/hierarchical_nas_construction.

Adrian El Baz, Ihsan Ullah, Edesio Alcobaça et al.

Although deep neural networks are capable of achieving performance superior to humans on various tasks, they are notorious for requiring large amounts of data and computing resources, restricting their success to domains where such resources are available. Metalearning methods can address this problem by transferring knowledge from related tasks, thus reducing the amount of data and computing resources needed to learn new tasks. We organize the MetaDL competition series, which provide opportunities for research groups all over the world to create and experimentally assess new meta-(deep)learning solutions for real problems. In this paper, authored collaboratively between the competition organizers and the top-ranked participants, we describe the design of the competition, the datasets, the best experimental results, as well as the top-ranked methods in the NeurIPS 2021 challenge, which attracted 15 active teams who made it to the final phase (by outperforming the baseline), making over 100 code submissions during the feedback phase. The solutions of the top participants have been open-sourced. The lessons learned include that learning good representations is essential for effective transfer learning.

Yoshua Bengio, Geoffrey Hinton, Andrew Yao et al. · mila

Artificial Intelligence (AI) is progressing rapidly, and companies are shifting their focus to developing generalist AI systems that can autonomously act and pursue goals. Increases in capabilities and autonomy may soon massively amplify AI's impact, with risks that include large-scale social harms, malicious uses, and an irreversible loss of human control over autonomous AI systems. Although researchers have warned of extreme risks from AI, there is a lack of consensus about how exactly such risks arise, and how to manage them. Society's response, despite promising first steps, is incommensurate with the possibility of rapid, transformative progress that is expected by many experts. AI safety research is lagging. Present governance initiatives lack the mechanisms and institutions to prevent misuse and recklessness, and barely address autonomous systems. In this short consensus paper, we describe extreme risks from upcoming, advanced AI systems. Drawing on lessons learned from other safety-critical technologies, we then outline a comprehensive plan combining technical research and development with proactive, adaptive governance mechanisms for a more commensurate preparation.

Carl Hvarfner, Danny Stoll, Artur Souza et al.

Bayesian optimization (BO) has become an established framework and popular tool for hyperparameter optimization (HPO) of machine learning (ML) algorithms. While known for its sample-efficiency, vanilla BO can not utilize readily available prior beliefs the practitioner has on the potential location of the optimum. Thus, BO disregards a valuable source of information, reducing its appeal to ML practitioners. To address this issue, we propose $π$BO, an acquisition function generalization which incorporates prior beliefs about the location of the optimum in the form of a probability distribution, provided by the user. In contrast to previous approaches, $π$BO is conceptually simple and can easily be integrated with existing libraries and many acquisition functions. We provide regret bounds when $π$BO is applied to the common Expected Improvement acquisition function and prove convergence at regular rates independently of the prior. Further, our experiments show that $π$BO outperforms competing approaches across a wide suite of benchmarks and prior characteristics. We also demonstrate that $π$BO improves on the state-of-the-art performance for a popular deep learning task, with a 12.5 $\times$ time-to-accuracy speedup over prominent BO approaches.

Jannis Becktepe, Julian Dierkes, Carolin Benjamins et al.

Hyperparameters are a critical factor in reliably training well-performing reinforcement learning (RL) agents. Unfortunately, developing and evaluating automated approaches for tuning such hyperparameters is both costly and time-consuming. As a result, such approaches are often only evaluated on a single domain or algorithm, making comparisons difficult and limiting insights into their generalizability. We propose ARLBench, a benchmark for hyperparameter optimization (HPO) in RL that allows comparisons of diverse HPO approaches while being highly efficient in evaluation. To enable research into HPO in RL, even in settings with low compute resources, we select a representative subset of HPO tasks spanning a variety of algorithm and environment combinations. This selection allows for generating a performance profile of an automated RL (AutoRL) method using only a fraction of the compute previously necessary, enabling a broader range of researchers to work on HPO in RL. With the extensive and large-scale dataset on hyperparameter landscapes that our selection is based on, ARLBench is an efficient, flexible, and future-oriented foundation for research on AutoRL. Both the benchmark and the dataset are available at https://github.com/automl/arlbench.

Carl Hvarfner, Frank Hutter, Luigi Nardi

Information-theoretic Bayesian optimization techniques have become popular for optimizing expensive-to-evaluate black-box functions due to their non-myopic qualities. Entropy Search and Predictive Entropy Search both consider the entropy over the optimum in the input space, while the recent Max-value Entropy Search considers the entropy over the optimal value in the output space. We propose Joint Entropy Search (JES), a novel information-theoretic acquisition function that considers an entirely new quantity, namely the entropy over the joint optimal probability density over both input and output space. To incorporate this information, we consider the reduction in entropy from conditioning on fantasized optimal input/output pairs. The resulting approach primarily relies on standard GP machinery and removes complex approximations typically associated with information-theoretic methods. With minimal computational overhead, JES shows superior decision-making, and yields state-of-the-art performance for information-theoretic approaches across a wide suite of tasks. As a light-weight approach with superior results, JES provides a new go-to acquisition function for Bayesian optimization.

Steven Adriaensen, André Biedenkapp, Gresa Shala et al.

The performance of an algorithm often critically depends on its parameter configuration. While a variety of automated algorithm configuration methods have been proposed to relieve users from the tedious and error-prone task of manually tuning parameters, there is still a lot of untapped potential as the learned configuration is static, i.e., parameter settings remain fixed throughout the run. However, it has been shown that some algorithm parameters are best adjusted dynamically during execution, e.g., to adapt to the current part of the optimization landscape. Thus far, this is most commonly achieved through hand-crafted heuristics. A promising recent alternative is to automatically learn such dynamic parameter adaptation policies from data. In this article, we give the first comprehensive account of this new field of automated dynamic algorithm configuration (DAC), present a series of recent advances, and provide a solid foundation for future research in this field. Specifically, we (i) situate DAC in the broader historical context of AI research; (ii) formalize DAC as a computational problem; (iii) identify the methods used in prior-art to tackle this problem; (iv) conduct empirical case studies for using DAC in evolutionary optimization, AI planning, and machine learning.

Neeratyoy Mallik, Edward Bergman, Carl Hvarfner et al.

Hyperparameters of Deep Learning (DL) pipelines are crucial for their downstream performance. While a large number of methods for Hyperparameter Optimization (HPO) have been developed, their incurred costs are often untenable for modern DL. Consequently, manual experimentation is still the most prevalent approach to optimize hyperparameters, relying on the researcher's intuition, domain knowledge, and cheap preliminary explorations. To resolve this misalignment between HPO algorithms and DL researchers, we propose PriorBand, an HPO algorithm tailored to DL, able to utilize both expert beliefs and cheap proxy tasks. Empirically, we demonstrate PriorBand's efficiency across a range of DL benchmarks and show its gains under informative expert input and robustness against poor expert beliefs

Mustafa Tajjar, Alexander Pfefferle, Lennart Purucker et al.

Tabular foundation models, such as TabPFN, achieve strong performance on tabular datasets with numerical and categorical data, but do not natively handle high-cardinality text features. Standard pipelines, therefore, embed text with a language model and compress the resulting vectors with PCA into a small number of scalar features before inputting them into TabPFN. This creates an information bottleneck: most embedding dimensions are discarded, and the compressed representation must then be expanded again by TabPFN's feature encoder. End-to-end alternatives can avoid PCA, but they require large amounts of pretraining data containing text cells and usually perform subpar compared to tabular foundation models that were pretrained on large amounts of synthetic data. Inspired by modality-alignment approaches like LLaVA (vision-to-LLM token projection) and TableGPT-style systems (table-to-LLM token projection), we introduce the TabPFN Text Adapter (text-to-TFM token projection). We freeze both the sentence encoder and TabPFN, and train only a lightweight adapter that maps text embeddings into a short sequence of tokens in TabPFN's embedding space. This design removes the PCA bottleneck, preserves TabPFN's numerical strengths, and is more efficient to train than end-to-end text-tabular pipelines.

Samuel Böhm, Lennart Purucker, Frank Hutter et al.

Tabular foundation models (TFMs) have made rapid progress in standard classification and regression, but time-to-event survival prediction tasks have remained largely untouched. Unlike in standard regression tasks, survival prediction models must account for censored data. Standard TFMs cannot handle natively censored data, leading to biased and inaccurate predictions, making them unsuitable for real-world applications. To overcome this fundamental limitation, we propose \texttt{SurvPFN}, a prior-data fitted network (PFN), for survival prediction tasks. We pretrain \texttt{SurvPFN} on millions of synthetic survival prediction tasks to learn survival via distributional regression that accounts for censored data. \texttt{SurvPFN} works by (1) generating data with Weibull event times and a non-informative censoring mechanism; (2) integrating a censored event indicator; and (3) minimizing a censored negative log-likelihood. On SurvSet, a collection of real-world survival tasks, \texttt{SurvPFN} is highly competitive with classical and deep survival baselines without per-dataset fitting, a survival-specific architecture, or feature engineering. We show that survival can be treated as a continuous-time distributional regression problem with censored loss, unlocking the power of PFNs for time-to-event predictions.

Hilde Weerts, Florian Pfisterer, Matthias Feurer et al.

The field of automated machine learning (AutoML) introduces techniques that automate parts of the development of machine learning (ML) systems, accelerating the process and reducing barriers for novices. However, decisions derived from ML models can reproduce, amplify, or even introduce unfairness in our societies, causing harm to (groups of) individuals. In response, researchers have started to propose AutoML systems that jointly optimize fairness and predictive performance to mitigate fairness-related harm. However, fairness is a complex and inherently interdisciplinary subject, and solely posing it as an optimization problem can have adverse side effects. With this work, we aim to raise awareness among developers of AutoML systems about such limitations of fairness-aware AutoML, while also calling attention to the potential of AutoML as a tool for fairness research. We present a comprehensive overview of different ways in which fairness-related harm can arise and the ensuing implications for the design of fairness-aware AutoML. We conclude that while fairness cannot be automated, fairness-aware AutoML can play an important role in the toolbox of ML practitioners. We highlight several open technical challenges for future work in this direction. Additionally, we advocate for the creation of more user-centered assistive systems designed to tackle challenges encountered in fairness work

Carl Hvarfner, Erik Hellsten, Frank Hutter et al.

Gaussian processes are the model of choice in Bayesian optimization and active learning. Yet, they are highly dependent on cleverly chosen hyperparameters to reach their full potential, and little effort is devoted to finding good hyperparameters in the literature. We demonstrate the impact of selecting good hyperparameters for GPs and present two acquisition functions that explicitly prioritize hyperparameter learning. Statistical distance-based Active Learning (SAL) considers the average disagreement between samples from the posterior, as measured by a statistical distance. SAL outperforms the state-of-the-art in Bayesian active learning on several test functions. We then introduce Self-Correcting Bayesian Optimization (SCoreBO), which extends SAL to perform Bayesian optimization and active learning simultaneously. SCoreBO learns the model hyperparameters at improved rates compared to vanilla BO, while outperforming the latest Bayesian optimization methods on traditional benchmarks. Moreover, we demonstrate the importance of self-correction on atypical Bayesian optimization tasks.

Shuhei Watanabe, Archit Bansal, Frank Hutter

The recent rise in popularity of Hyperparameter Optimization (HPO) for deep learning has highlighted the role that good hyperparameter (HP) space design can play in training strong models. In turn, designing a good HP space is critically dependent on understanding the role of different HPs. This motivates research on HP Importance (HPI), e.g., with the popular method of functional ANOVA (f-ANOVA). However, the original f-ANOVA formulation is inapplicable to the subspaces most relevant to algorithm designers, such as those defined by top performance. To overcome this issue, we derive a novel formulation of f-ANOVA for arbitrary subspaces and propose an algorithm that uses Pearson divergence (PED) to enable a closed-form calculation of HPI. We demonstrate that this new algorithm, dubbed PED-ANOVA, is able to successfully identify important HPs in different subspaces while also being extremely computationally efficient.

Diane Wagner, Fabio Ferreira, Danny Stoll et al.

Self-Supervised Learning (SSL) has become a very active area of Deep Learning research where it is heavily used as a pre-training method for classification and other tasks. However, the rapid pace of advancements in this area comes at a price: training pipelines vary significantly across papers, which presents a potentially crucial confounding factor. Here, we show that, indeed, the choice of hyperparameters and data augmentation strategies can have a dramatic impact on performance. To shed light on these neglected factors and help maximize the power of SSL, we hyperparameterize these components and optimize them with Bayesian optimization, showing improvements across multiple datasets for the SimSiam SSL approach. Realizing the importance of data augmentations for SSL, we also introduce a new automated data augmentation algorithm, GroupAugment, which considers groups of augmentations and optimizes the sampling across groups. In contrast to algorithms designed for supervised learning, GroupAugment achieved consistently high linear evaluation accuracy across all datasets we considered. Overall, our results indicate the importance and likely underestimated role of data augmentation for SSL.

Difan Deng, Florian Karl, Frank Hutter et al.

Recent years have witnessed tremendously improved efficiency of Automated Machine Learning (AutoML), especially Automated Deep Learning (AutoDL) systems, but recent work focuses on tabular, image, or NLP tasks. So far, little attention has been paid to general AutoDL frameworks for time series forecasting, despite the enormous success in applying different novel architectures to such tasks. In this paper, we propose an efficient approach for the joint optimization of neural architecture and hyperparameters of the entire data processing pipeline for time series forecasting. In contrast to common NAS search spaces, we designed a novel neural architecture search space covering various state-of-the-art architectures, allowing for an efficient macro-search over different DL approaches. To efficiently search in such a large configuration space, we use Bayesian optimization with multi-fidelity optimization. We empirically study several different budget types enabling efficient multi-fidelity optimization on different forecasting datasets. Furthermore, we compared our resulting system, dubbed \system, against several established baselines and show that it significantly outperforms all of them across several datasets.

Shuhei Watanabe, Frank Hutter

Hyperparameter optimization (HPO) is crucial for strong performance of deep learning algorithms and real-world applications often impose some constraints, such as memory usage, or latency on top of the performance requirement. In this work, we propose constrained TPE (c-TPE), an extension of the widely-used versatile Bayesian optimization method, tree-structured Parzen estimator (TPE), to handle these constraints. Our proposed extension goes beyond a simple combination of an existing acquisition function and the original TPE, and instead includes modifications that address issues that cause poor performance. We thoroughly analyze these modifications both empirically and theoretically, providing insights into how they effectively overcome these challenges. In the experiments, we demonstrate that c-TPE exhibits the best average rank performance among existing methods with statistical significance on 81 expensive HPO with inequality constraints. Due to the lack of baselines, we only discuss the applicability of our method to hard-constrained optimization in Appendix D.

Shuhei Watanabe, Noor Awad, Masaki Onishi et al.

Hyperparameter optimization (HPO) is a vital step in improving performance in deep learning (DL). Practitioners are often faced with the trade-off between multiple criteria, such as accuracy and latency. Given the high computational needs of DL and the growing demand for efficient HPO, the acceleration of multi-objective (MO) optimization becomes ever more important. Despite the significant body of work on meta-learning for HPO, existing methods are inapplicable to MO tree-structured Parzen estimator (MO-TPE), a simple yet powerful MO-HPO algorithm. In this paper, we extend TPE's acquisition function to the meta-learning setting using a task similarity defined by the overlap of top domains between tasks. We also theoretically analyze and address the limitations of our task similarity. In the experiments, we demonstrate that our method speeds up MO-TPE on tabular HPO benchmarks and attains state-of-the-art performance. Our method was also validated externally by winning the AutoML 2022 competition on "Multiobjective Hyperparameter Optimization for Transformers".

Jörg K. H. Franke, Frederic Runge, Frank Hutter

Our world is ambiguous and this is reflected in the data we use to train our algorithms. This is particularly true when we try to model natural processes where collected data is affected by noisy measurements and differences in measurement techniques. Sometimes, the process itself is ambiguous, such as in the case of RNA folding, where the same nucleotide sequence can fold into different structures. This suggests that a predictive model should have similar probabilistic characteristics to match the data it models. Therefore, we propose a hierarchical latent distribution to enhance one of the most successful deep learning models, the Transformer, to accommodate ambiguities and data distributions. We show the benefits of our approach (1) on a synthetic task that captures the ability to learn a hidden data distribution, (2) with state-of-the-art results in RNA folding that reveal advantages on highly ambiguous data, and (3) demonstrating its generative capabilities on property-based molecule design by implicitly learning the underlying distributions and outperforming existing work.

Ekrem Öztürk, Fabio Ferreira, Hadi S. Jomaa et al.

Given a new dataset D and a low compute budget, how should we choose a pre-trained model to fine-tune to D, and set the fine-tuning hyperparameters without risking overfitting, particularly if D is small? Here, we extend automated machine learning (AutoML) to best make these choices. Our domain-independent meta-learning approach learns a zero-shot surrogate model which, at test time, allows to select the right deep learning (DL) pipeline (including the pre-trained model and fine-tuning hyperparameters) for a new dataset D given only trivial meta-features describing D such as image resolution or the number of classes. To train this zero-shot model, we collect performance data for many DL pipelines on a large collection of datasets and meta-train on this data to minimize a pairwise ranking objective. We evaluate our approach under the strict time limit of the vision track of the ChaLearn AutoDL challenge benchmark, clearly outperforming all challenge contenders.

Jörg K. H. Franke, Frederic Runge, Frank Hutter

The field of RNA secondary structure prediction has made significant progress with the adoption of deep learning techniques. In this work, we present the RNAformer, a lean deep learning model using axial attention and recycling in the latent space. We gain performance improvements by designing the architecture for modeling the adjacency matrix directly in the latent space and by scaling the size of the model. Our approach achieves state-of-the-art performance on the popular TS0 benchmark dataset and even outperforms methods that use external information. Further, we show experimentally that the RNAformer can learn a biophysical model of the RNA folding process.

Matthias Feurer, Katharina Eggensperger, Edward Bergman et al.

Modern machine learning models are often constructed taking into account multiple objectives, e.g., minimizing inference time while also maximizing accuracy. Multi-objective hyperparameter optimization (MHPO) algorithms return such candidate models, and the approximation of the Pareto front is used to assess their performance. In practice, we also want to measure generalization when moving from the validation to the test set. However, some of the models might no longer be Pareto-optimal which makes it unclear how to quantify the performance of the MHPO method when evaluated on the test set. To resolve this, we provide a novel evaluation protocol that allows measuring the generalization performance of MHPO methods and studying its capabilities for comparing two optimization experiments.

Frederic Runge, Jörg K. H. Franke, Frank Hutter

Experimental screening and selection pipelines for the discovery of novel riboswitches are expensive, time-consuming, and inefficient. Using computational methods to reduce the number of candidates for the screen could drastically decrease these costs. However, existing computational approaches do not fully satisfy all requirements for the design of such initial screening libraries. In this work, we present a new method, libLEARNA, capable of providing RNA focus libraries of diverse variable-length qualified candidates. Our novel structure-based design approach considers global properties as well as desired sequence and structure features. We demonstrate the benefits of our method by designing theophylline riboswitch libraries, following a previously published protocol, and yielding 30% more unique high-quality candidates.

Iman Nematollahi, Erick Rosete-Beas, Seyed Mahdi B. Azad et al.

For autonomous skill acquisition, robots have to learn about the physical rules governing the 3D world dynamics from their own past experience to predict and reason about plausible future outcomes. To this end, we propose a transformation-based 3D video prediction (T3VIP) approach that explicitly models the 3D motion by decomposing a scene into its object parts and predicting their corresponding rigid transformations. Our model is fully unsupervised, captures the stochastic nature of the real world, and the observational cues in image and point cloud domains constitute its learning signals. To fully leverage all the 2D and 3D observational signals, we equip our model with automatic hyperparameter optimization (HPO) to interpret the best way of learning from them. To the best of our knowledge, our model is the first generative model that provides an RGB-D video prediction of the future for a static camera. Our extensive evaluation with simulated and real-world datasets demonstrates that our formulation leads to interpretable 3D models that predict future depth videos while achieving on-par performance with 2D models on RGB video prediction. Moreover, we demonstrate that our model outperforms 2D baselines on visuomotor control. Videos, code, dataset, and pre-trained models are available at http://t3vip.cs.uni-freiburg.de.

Fabio Ferreira, Lucca Wobbe, Arjun Krishnakumar et al.

The autoresearch repository enables an LLM agent to search for optimal hyperparameter configurations on an unconstrained search space by editing the training code directly. Given a fixed compute budget and constraints, we use \emph{autoresearch} as a testbed to compare classical hyperparameter optimization (HPO) algorithms against LLM-based methods on tuning the hyperparameters of a small language model. Within a fixed hyperparameter search space, classical HPO methods such as CMA-ES and TPE consistently outperform LLM-based agents. However, an LLM agent that directly edits training source code in an unconstrained search space narrows the gap to classical methods substantially despite using only a self-hosted open-weight 27B model. Methods that avoid out-of-memory failures outperform those with higher search diversity, suggesting that reliability matters more than exploration breadth. While small and mid-sized LLMs struggle to track optimization state across trials, classical methods lack domain knowledge. To bridge this gap, we introduce Centaur, a hybrid that shares CMA-ES's internal state, including mean vector, step-size, and covariance matrix, with an LLM. Centaur achieves the best result in our experiments, with its 0.8B variant outperforming the 27B variant, suggesting that a cheap LLM suffices when paired with a strong classical optimizer. The 0.8B model is insufficient for unconstrained code editing but sufficient for hybrid optimization, while scaling to 27B provides no advantage for fixed search space methods with the open-weight models tested. Code is available at https://github.com/ferreirafabio/autoresearch-automl.

Niclas Kannengießer, Niklas Hasebrook, Felix Morsbach et al.

Programmatic hyperparameter optimization (HPO) methods, such as Bayesian optimization and evolutionary algorithms, are highly sample-efficient in identifying optimal hyperparameter configurations for machine learning (ML) models. However, practitioners frequently use less efficient methods, such as grid search, which can lead to under-optimized models. We suspect this behavior is driven by a range of practitioner-specific motives. Practitioner motives, however, still need to be clarified to enhance user-centered development of HPO tools. To uncover practitioner motives to use different HPO methods, we conducted 20 semi-structured interviews and an online survey with 49 ML experts. By presenting main goals (e.g., increase ML model understanding) and contextual factors affecting practitioners' selection of HPO methods (e.g., available computer resources), this study offers a conceptual foundation to better understand why practitioners use different HPO methods, supporting development of more user-centered and context-adaptive HPO tools in automated ML.

Alexander Pfefferle, Johannes Hog, Lennart Purucker et al.

Tabular foundation models such as TabPFN have revolutionized predictive machine learning for tabular data. At the same time, the driving factors of this revolution are hard to understand. Existing open-source tabular foundation models are implemented in complicated pipelines boasting over 10,000 lines of code, lack architecture documentation or code quality. In short, the implementations are hard to understand, not beginner-friendly, and complicated to adapt for new experiments. We introduce nanoTabPFN, a simplified and lightweight implementation of the TabPFN v2 architecture and a corresponding training loop that uses pre-generated training data. nanoTabPFN makes tabular foundation models more accessible to students and researchers alike. For example, restricted to a small data setting it achieves a performance comparable to traditional machine learning baselines within one minute of pre-training on a single GPU (160,000x faster than TabPFN v2 pretraining). This eliminated requirement of large computational resources makes pre-training tabular foundation models accessible for educational purposes. Our code is available at https://github.com/automl/nanoTabPFN.

Steven Adriaensen, Herilalaina Rakotoarison, Samuel Müller et al.

Learning curve extrapolation aims to predict model performance in later epochs of training, based on the performance in earlier epochs. In this work, we argue that, while the inherent uncertainty in the extrapolation of learning curves warrants a Bayesian approach, existing methods are (i) overly restrictive, and/or (ii) computationally expensive. We describe the first application of prior-data fitted neural networks (PFNs) in this context. A PFN is a transformer, pre-trained on data generated from a prior, to perform approximate Bayesian inference in a single forward pass. We propose LC-PFN, a PFN trained to extrapolate 10 million artificial right-censored learning curves generated from a parametric prior proposed in prior art using MCMC. We demonstrate that LC-PFN can approximate the posterior predictive distribution more accurately than MCMC, while being over 10 000 times faster. We also show that the same LC-PFN achieves competitive performance extrapolating a total of 20 000 real learning curves from four learning curve benchmarks (LCBench, NAS-Bench-201, Taskset, and PD1) that stem from training a wide range of model architectures (MLPs, CNNs, RNNs, and Transformers) on 53 different datasets with varying input modalities (tabular, image, text, and protein data). Finally, we investigate its potential in the context of model selection and find that a simple LC-PFN based predictive early stopping criterion obtains 2 - 6x speed-ups on 45 of these datasets, at virtually no overhead.

Sebastian Pineda Arango, Fabio Ferreira, Arlind Kadra et al.

With the ever-increasing number of pretrained models, machine learning practitioners are continuously faced with which pretrained model to use, and how to finetune it for a new dataset. In this paper, we propose a methodology that jointly searches for the optimal pretrained model and the hyperparameters for finetuning it. Our method transfers knowledge about the performance of many pretrained models with multiple hyperparameter configurations on a series of datasets. To this aim, we evaluated over 20k hyperparameter configurations for finetuning 24 pretrained image classification models on 87 datasets to generate a large-scale meta-dataset. We meta-learn a multi-fidelity performance predictor on the learning curves of this meta-dataset and use it for fast hyperparameter optimization on new datasets. We empirically demonstrate that our resulting approach can quickly select an accurate pretrained model for a new dataset together with its optimal hyperparameters.

Omar Swelam, Lennart Purucker, Jake Robertson et al.

Causal discovery is fundamental for multiple scientific domains, yet extracting causal information from real world data remains a significant challenge. Given the recent success on real data, we investigate whether TabPFN, a transformer-based tabular foundation model pre-trained on synthetic datasets generated from structural causal models, encodes causal information in its internal representations. We develop an adapter framework using a learnable decoder and causal tokens that extract causal signals from TabPFN's frozen embeddings and decode them into adjacency matrices for causal discovery. Our evaluations demonstrate that TabPFN's embeddings contain causal information, outperforming several traditional causal discovery algorithms, with such causal information being concentrated in mid-range layers. These findings establish a new direction for interpretable and adaptable foundation models and demonstrate the potential for leveraging pre-trained tabular models for causal discovery.

Jake Robertson, Noah Hollmann, Noor Awad et al.

Machine Learning systems are increasingly prevalent across healthcare, law enforcement, and finance but often operate on historical data, which may carry biases against certain demographic groups. Causal and counterfactual fairness provides an intuitive way to define fairness that closely aligns with legal standards. Despite its theoretical benefits, counterfactual fairness comes with several practical limitations, largely related to the reliance on domain knowledge and approximate causal discovery techniques in constructing a causal model. In this study, we take a fresh perspective on counterfactually fair prediction, building upon recent work in in context learning (ICL) and prior fitted networks (PFNs) to learn a transformer called FairPFN. This model is pretrained using synthetic fairness data to eliminate the causal effects of protected attributes directly from observational data, removing the requirement of access to the correct causal model in practice. In our experiments, we thoroughly assess the effectiveness of FairPFN in eliminating the causal impact of protected attributes on a series of synthetic case studies and real world datasets. Our findings pave the way for a new and promising research area: transformers for causal and counterfactual fairness.

Andrej Schwanke, Lyubomir Ivanov, David Salinas et al.

Despite their widespread adoption in various domains, especially due to their powerful reasoning capabilities, Large Language Models (LLMs) are not the off-the-shelf choice to drive multi-objective optimization yet. Conventional strategies rank high in benchmarks due to their intrinsic capabilities to handle numerical inputs and careful modelling choices that balance exploration and Pareto-front exploitation, as well as handle multiple (conflicting) objectives. In this paper, we close this gap by leveraging LLMs as surrogate models and candidate samplers inside a structured hierarchical search strategy. By adaptively partitioning the input space into disjoint hyperrectangular regions and ranking them with a composite score function, we restrict the generative process of the LLM to specific, high-potential sub-spaces, hence making the problem easier to solve as the LLM doesn't have to reason about the global structure of the problem, but only locally instead. We show that under standard regularity assumptions, our algorithm generates candidate solutions that converge to the true Pareto set in Hausdorff distance. Empirically, it consistently outperforms the global LLM-based multi-objective optimizer and is on par with standard evolutionary and Bayesian optimization algorithm on synthetic and real-world benchmarks.

Uljad Berdica, Jakob Foerster, Frank Hutter et al.

The generation of sustained, open-ended complexity from local interactions remains a fundamental challenge in artificial life. Differentiable multi-agent systems, such as Petri Dish Neural Cellular Automata (PD-NCA), exhibit rich self-organization driven purely by spatial competition; however, they are highly sensitive to hyperparameters and frequently collapse into uninteresting patterns and dynamics, such as frozen equilibria or structureless noise. In this paper, we introduce PBT-NCA, a meta-evolutionary algorithm that evolves a population of PD-NCAs subject to a composite objective that rewards both historical behavioral novelty and contemporary visual diversity. Driven by this continuous evolutionary pressure, PBT-NCA spontaneously generates a plethora of emergent lifelike phenomena over extended horizons-a hallmark of true open-endedness. Strikingly, the substrate autonomously discovers diverse morphological survival and self-organization strategies. We observe highly regular, coordinated periodic waves; spore-like scattering where homogeneous groups eject cell-like clusters to colonize distant territories; and fluid, shape-shifting macro-structures that migrate across the substrate, maintaining stable outer boundaries that enclose highly active interiors. By actively penalizing monocultures and dead states, PBT-NCA sustains a state of effective complexity that is neither globally ordered nor globally random, operating persistently at the "edge of chaos".

Arik Reuter, Anish Dhir, Cristiana Diaconu et al.

Estimating causal quantities traditionally relies on bespoke estimators tailored to specific assumptions. Recently proposed Causal Foundation Models (CFMs) promise a more unified approach by amortising causal discovery and inference in a single step. However, in their current state, they do not allow for the incorporation of any domain knowledge, which can lead to suboptimal predictions. We bridge this gap by introducing methods to condition CFMs on causal information, such as the causal graph or more readily available ancestral information. When access to complete causal graph information is too strict a requirement, our approach also effectively leverages partial causal information. We systematically evaluate conditioning strategies and find that injecting learnable biases into the attention mechanism is the most effective method to utilise full and partial causal information. Our experiments show that this conditioning allows a general-purpose CFM to match the performance of specialised models trained on specific causal structures. Overall, our approach addresses a central hurdle on the path towards all-in-one causal foundation models: the capability to answer causal queries in a data-driven manner while effectively leveraging any amount of domain expertise.

Carl Hvarfner, Frank Hutter, Luigi Nardi

The optimization of expensive-to-evaluate black-box functions is prevalent in various scientific disciplines. Bayesian optimization is an automatic, general and sample-efficient method to solve these problems with minimal knowledge of the underlying function dynamics. However, the ability of Bayesian optimization to incorporate prior knowledge or beliefs about the function at hand in order to accelerate the optimization is limited, which reduces its appeal for knowledgeable practitioners with tight budgets. To allow domain experts to customize the optimization routine, we propose ColaBO, the first Bayesian-principled framework for incorporating prior beliefs beyond the typical kernel structure, such as the likely location of the optimizer or the optimal value. The generality of ColaBO makes it applicable across different Monte Carlo acquisition functions and types of user beliefs. We empirically demonstrate ColaBO's ability to substantially accelerate optimization when the prior information is accurate, and to retain approximately default performance when it is misleading.

Benjamin Feuer, Robin Tibor Schirrmeister, Valeriia Cherepanova et al.

While tabular classification has traditionally relied on from-scratch training, a recent breakthrough called prior-data fitted networks (PFNs) challenges this approach. Similar to large language models, PFNs make use of pretraining and in-context learning to achieve strong performance on new tasks in a single forward pass. However, current PFNs have limitations that prohibit their widespread adoption. Notably, TabPFN achieves very strong performance on small tabular datasets but is not designed to make predictions for datasets of size larger than 1000. In this work, we overcome these limitations and substantially improve the performance of PFNs via context optimization. We introduce TuneTables, a parameter-efficient fine-tuning strategy for PFNs that compresses large datasets into a smaller learned context. We conduct extensive experiments on 19 algorithms over 98 datasets and find that TuneTables achieves the best performance on average, outperforming boosted trees such as CatBoost, while optimizing fewer than 5% of TabPFN's parameters. Furthermore, we show that TuneTables can be used as an interpretability tool and can even be used to mitigate biases by optimizing a fairness objective. We open-source our code and raw results at https://github.com/penfever/TuneTables.

Shi Bin Hoo, Samuel Müller, David Salinas et al.

Foundation models have become increasingly popular for forecasting due to their ability to provide predictions without requiring a lot of training data. In this work, we demonstrate how TabPFN-v2, a general tabular foundation model, can be effectively applied to time series forecasting. We introduce TabPFN-TS, a simple method that combines TabPFN-v2 with lightweight feature engineering to enable both point and probabilistic forecasting. Despite its simplicity and compact size (11M parameters), TabPFN-TS achieves top rank on the public GIFT-Eval leaderboard in both forecasting tasks. Through ablation studies, we investigate factors contributing to this surprising effectiveness, especially considering TabPFN-v2 was pretrained solely on synthetic tabular data with no exposure to time series. Our results highlights the potential of tabular foundation models like TabPFN-v2 as a valuable new approach for time series forecasting. Our implementation is available at https://github.com/PriorLabs/tabpfn-time-series.

Fabio Ferreira, Moreno Schlageter, Raghu Rajan et al.

A World Model is a compressed spatial and temporal representation of a real world environment that allows one to train an agent or execute planning methods. However, world models are typically trained on observations from the real world environment, and they usually do not enable learning policies for other real environments. We propose One-Shot World Model (OSWM), a transformer world model that is learned in an in-context learning fashion from purely synthetic data sampled from a prior distribution. Our prior is composed of multiple randomly initialized neural networks, where each network models the dynamics of each state and reward dimension of a desired target environment. We adopt the supervised learning procedure of Prior-Fitted Networks by masking next-state and reward at random context positions and query OSWM to make probabilistic predictions based on the remaining transition context. During inference time, OSWM is able to quickly adapt to the dynamics of a simple grid world, as well as the CartPole gym and a custom control environment by providing 1k transition steps as context and is then able to successfully train environment-solving agent policies. However, transferring to more complex environments remains a challenge, currently. Despite these limitations, we see this work as an important stepping-stone in the pursuit of learning world models purely from synthetic data.

Sathya Kamesh Bhethanabhotla, Omar Swelam, Julien Siems et al.

This paper introduces Mamba4Cast, a zero-shot foundation model for time series forecasting. Based on the Mamba architecture and inspired by Prior-data Fitted Networks (PFNs), Mamba4Cast generalizes robustly across diverse time series tasks without the need for dataset specific fine-tuning. Mamba4Cast's key innovation lies in its ability to achieve strong zero-shot performance on real-world datasets while having much lower inference times than time series foundation models based on the transformer architecture. Trained solely on synthetic data, the model generates forecasts for entire horizons in a single pass, outpacing traditional auto-regressive approaches. Our experiments show that Mamba4Cast performs competitively against other state-of-the-art foundation models in various data sets while scaling significantly better with the prediction length. The source code can be accessed at https://github.com/automl/Mamba4Cast.

Junwei Ma, Nour Shaheen, Alex Labach et al.

Deep tabular modelling increasingly relies on in-context learning where, during inference, a model receives a set of $(x,y)$ pairs as context and predicts labels for new inputs without weight updates. We challenge the prevailing view that broad generalization here requires pre-training on large synthetic corpora (e.g., TabPFN priors) or a large collection of real data (e.g., TabDPT training datasets), discovering that a relatively small amount of data suffices for generalization. We find that simple self-supervised pre-training on just a \emph{single} real table can produce surprisingly strong transfer across heterogeneous benchmarks. By systematically pre-training and evaluating on many diverse datasets, we analyze what aspects of the data are most important for building a Tabular Foundation Model (TFM) generalizing across domains. We then connect this to the pre-training procedure shared by most TFMs and show that the number and quality of \emph{tasks} one can construct from a dataset is key to downstream performance.

Anton Geburek, Neeratyoy Mallik, Danny Stoll et al.

The importance of tuning hyperparameters in Machine Learning (ML) and Deep Learning (DL) is established through empirical research and applications, evident from the increase in new hyperparameter optimization (HPO) algorithms and benchmarks steadily added by the community. However, current benchmarking practices using averaged performance across many datasets may obscure key differences between HPO methods, especially for pairwise comparisons. In this work, we apply Linear Mixed-Effect Models-based (LMEMs) significance testing for post-hoc analysis of HPO benchmarking runs. LMEMs allow flexible and expressive modeling on the entire experiment data, including information such as benchmark meta-features, offering deeper insights than current analysis practices. We demonstrate this through a case study on the PriorBand paper's experiment data to find insights not reported in the original work.

Sarah Segel, Helena Graf, Edward Bergman et al.

Hyperparameter optimization (HPO), as a central paradigm of AutoML, is crucial for leveraging the full potential of machine learning (ML) models; yet its complexity poses challenges in understanding and debugging the optimization process. We present DeepCAVE, a tool for interactive visualization and analysis, providing insights into HPO. Through an interactive dashboard, researchers, data scientists, and ML engineers can explore various aspects of the HPO process and identify issues, untouched potentials, and new insights about the ML model being tuned. By empowering users with actionable insights, DeepCAVE contributes to the interpretability of HPO and ML on a design level and aims to foster the development of more robust and efficient methodologies in the future.

Jaris Küken, Lennart Purucker, Frank Hutter

Tabular machine learning problems often require time-consuming and labor-intensive feature engineering. Recent efforts have focused on using large language models (LLMs) to capitalize on their potential domain knowledge. At the same time, researchers have observed ethically concerning negative biases in other LLM-related use cases, such as text generation. These developments motivated us to investigate whether LLMs exhibit a bias that negatively impacts the performance of feature engineering. While not ethically concerning, such a bias could hinder practitioners from fully utilizing LLMs for automated data science. Therefore, we propose a method to detect potential biases by detecting anomalies in the frequency of operators (e.g., adding two features) suggested by LLMs when engineering new features. Our experiments evaluate the bias of four LLMs, two big frontier and two small open-source models, across 27 tabular datasets. Our results indicate that LLMs are biased toward simple operators, such as addition, and can fail to utilize more complex operators, such as grouping followed by aggregations. Furthermore, the bias can negatively impact the predictive performance when using LLM-generated features. Our results call for mitigating bias when using LLMs for feature engineering.

Léo Grinsztajn, Klemens Flöge, Oscar Key et al.

The first tabular foundation model, TabPFN, and its successor TabPFNv2 have impacted tabular AI substantially, with dozens of methods building on it and hundreds of applications across different use cases. This report introduces TabPFN-2.5, the next generation of our tabular foundation model, built for datasets with up to 50,000 data points and 2,000 features, a 20x increase in data cells compared to TabPFNv2. TabPFN-2.5 is now the leading method for the industry standard benchmark TabArena (which contains datasets with up to 100,000 training data points), substantially outperforming tuned tree-based models and matching the accuracy of AutoGluon 1.4, a complex four-hour tuned ensemble that even includes the previous TabPFNv2. Remarkably, default TabPFN-2.5 has a 100% win rate against default XGBoost on small to medium-sized classification datasets (<=10,000 data points, 500 features) and a 87% win rate on larger datasets up to 100K samples and 2K features (85% for regression). For production use cases, we introduce a new distillation engine that converts TabPFN-2.5 into a compact MLP or tree ensemble, preserving most of its accuracy while delivering orders-of-magnitude lower latency and plug-and-play deployment. This new release will immediately strengthen the performance of the many applications and methods already built on the TabPFN ecosystem.

Rhea Sanjay Sukthanker, Arjun Krishnakumar, Mahmoud Safari et al.

Weight sharing is a fundamental concept in neural architecture search (NAS), enabling gradient-based methods to explore cell-based architectural spaces significantly faster than traditional black-box approaches. In parallel, weight-entanglement has emerged as a technique for more intricate parameter sharing amongst macro-architectural spaces. Since weight-entanglement is not directly compatible with gradient-based NAS methods, these two paradigms have largely developed independently in parallel sub-communities. This paper aims to bridge the gap between these sub-communities by proposing a novel scheme to adapt gradient-based methods for weight-entangled spaces. This enables us to conduct an in-depth comparative assessment and analysis of the performance of gradient-based NAS in weight-entangled search spaces. Our findings reveal that this integration of weight-entanglement and gradient-based NAS brings forth the various benefits of gradient-based methods, while preserving the memory efficiency of weight-entangled spaces. The code for our work is openly accessible https://github.com/automl/TangleNAS.