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Jacob Beck

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8 papers
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8

ICLR Conference 2025 Conference Paper

Metalic: Meta-Learning In-Context with Protein Language Models

  • Jacob Beck
  • Shikha Surana
  • Manus McAuliffe
  • Oliver Bent
  • Thomas D. Barrett
  • Juan Jose Garau-Luis
  • Paul Duckworth

Predicting the biophysical and functional properties of proteins is essential for in silico protein design. Machine learning has emerged as a promising technique for such prediction tasks. However, the relative scarcity of in vitro annotations means that these models often have little, or no, specific data on the desired fitness prediction task. As a result of limited data, protein language models (PLMs) are typically trained on general protein sequence modeling tasks, and then fine-tuned, or applied zero-shot, to protein fitness prediction. When no task data is available, the models make strong assumptions about the correlation between the protein sequence likelihood and fitness scores. In contrast, we propose meta-learning over a distribution of standard fitness prediction tasks, and demonstrate positive transfer to unseen fitness prediction tasks. Our method, called Metalic (Meta-Learning In-Context), uses in-context learning and fine-tuning, when data is available, to adapt to new tasks. Crucially, fine-tuning enables considerable generalization, even though it is not accounted for during meta-training. Our fine-tuned models achieve strong results with 18 times fewer parameters than state-of-the-art models. Moreover, our method sets a new state-of-the-art in low-data settings on ProteinGym, an established fitness-prediction benchmark. Due to data scarcity, we believe meta-learning will play a pivotal role in advancing protein engineering.

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ICML Conference 2024 Conference Paper

Distilling Morphology-Conditioned Hypernetworks for Efficient Universal Morphology Control

  • Zheng Xiong
  • Risto Vuorio
  • Jacob Beck
  • Matthieu Zimmer
  • Kun Shao
  • Shimon Whiteson

Learning a universal policy across different robot morphologies can significantly improve learning efficiency and enable zero-shot generalization to unseen morphologies. However, learning a highly performant universal policy requires sophisticated architectures like transformers (TF) that have larger memory and computational cost than simpler multi-layer perceptrons (MLP). To achieve both good performance like TF and high efficiency like MLP at inference time, we propose HyperDistill, which consists of: (1) A morphology-conditioned hypernetwork (HN) that generates robot-wise MLP policies, and (2) A policy distillation approach that is essential for successful training. We show that on UNIMAL, a benchmark with hundreds of diverse morphologies, HyperDistill performs as well as a universal TF teacher policy on both training and unseen test robots, but reduces model size by 6-14 times, and computational cost by 67-160 times in different environments. Our analysis attributes the efficiency advantage of HyperDistill at inference time to knowledge decoupling, i. e. , the ability to decouple inter-task and intra-task knowledge, a general principle that could also be applied to improve inference efficiency in other domains. The code is publicly available at https: //github. com/MasterXiong/Universal-Morphology-Control.

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RLC Conference 2024 Conference Paper

SplAgger: Split Aggregation for Meta-Reinforcement Learning

  • Jacob Beck
  • Matthew Thomas Jackson
  • Risto Vuorio
  • Zheng Xiong
  • Shimon Whiteson

A core ambition of reinforcement learning (RL) is the creation of agents capable of rapid learning in novel tasks. Meta-RL aims to achieve this by directly learning such agents. Black box methods do so by training off-the-shelf sequence models end-to-end. By contrast, task inference methods explicitly infer a posterior distribution over the unknown task, typically using distinct objectives and sequence models designed to enable task inference. Recent work has shown that task inference methods are not necessary for strong performance. However, it remains unclear whether task inference sequence models are beneficial even when task inference objectives are not. In this paper, we present evidence that task inference sequence models are indeed still beneficial. In particular, we investigate sequence models with permutation invariant aggregation, which exploit the fact that, due to the Markov property, the task posterior does not depend on the order of data. We empirically confirm the advantage of permutation invariant sequence models without the use of task inference objectives. However, we also find, surprisingly, that there are multiple conditions under which permutation variance remains useful. Therefore, we propose SplAgger, which uses both permutation variant and invariant components to achieve the best of both worlds, outperforming all baselines evaluated on continuous control and memory environments. Code is provided at https: //github. com/jacooba/hyper.

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RLJ Journal 2024 Journal Article

SplAgger: Split Aggregation for Meta-Reinforcement Learning

  • Jacob Beck
  • Matthew Thomas Jackson
  • Risto Vuorio
  • Zheng Xiong
  • Shimon Whiteson

A core ambition of reinforcement learning (RL) is the creation of agents capable of rapid learning in novel tasks. Meta-RL aims to achieve this by directly learning such agents. Black box methods do so by training off-the-shelf sequence models end-to-end. By contrast, task inference methods explicitly infer a posterior distribution over the unknown task, typically using distinct objectives and sequence models designed to enable task inference. Recent work has shown that task inference methods are not necessary for strong performance. However, it remains unclear whether task inference sequence models are beneficial even when task inference objectives are not. In this paper, we present evidence that task inference sequence models are indeed still beneficial. In particular, we investigate sequence models with permutation invariant aggregation, which exploit the fact that, due to the Markov property, the task posterior does not depend on the order of data. We empirically confirm the advantage of permutation invariant sequence models without the use of task inference objectives. However, we also find, surprisingly, that there are multiple conditions under which permutation variance remains useful. Therefore, we propose SplAgger, which uses both permutation variant and invariant components to achieve the best of both worlds, outperforming all baselines evaluated on continuous control and memory environments. Code is provided at https://github.com/jacooba/hyper.

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NeurIPS Conference 2023 Conference Paper

Recurrent Hypernetworks are Surprisingly Strong in Meta-RL

  • Jacob Beck
  • Risto Vuorio
  • Zheng Xiong
  • Shimon Whiteson

Deep reinforcement learning (RL) is notoriously impractical to deploy due to sample inefficiency. Meta-RL directly addresses this sample inefficiency by learning to perform few-shot learning when a distribution of related tasks is available for meta-training. While many specialized meta-RL methods have been proposed, recent work suggests that end-to-end learning in conjunction with an off-the-shelf sequential model, such as a recurrent network, is a surprisingly strong baseline. However, such claims have been controversial due to limited supporting evidence, particularly in the face of prior work establishing precisely the opposite. In this paper, we conduct an empirical investigation. While we likewise find that a recurrent network can achieve strong performance, we demonstrate that the use of hypernetworks is crucial to maximizing their potential. Surprisingly, when combined with hypernetworks, the recurrent baselines that are far simpler than existing specialized methods actually achieve the strongest performance of all methods evaluated. We provide code at https: //github. com/jacooba/hyper.

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AAMAS Conference 2023 Conference Paper

Trust Region Bounds for Decentralized PPO Under Non-stationarity

  • Mingfei Sun
  • Sam Devlin
  • Jacob Beck
  • Katja Hofmann
  • Shimon Whiteson

We present trust region bounds for optimizing decentralized policies in cooperative Multi-Agent Reinforcement Learning (MARL), which holds even when the transition dynamics are non-stationary. This new analysis provides a theoretical understanding of the strong performance of two recent actor-critic methods for MARL, which both rely on independent ratios, i. e. , computing probability ratios separately for each agent’s policy. We show that, despite the nonstationarity that independent ratios cause, a monotonic improvement guarantee still arises as a result of enforcing the trust region constraint over all decentralized policies. We also show this trust region constraint can be effectively enforced in a principled way by bounding independent ratios based on the number of agents in training, providing a theoretical foundation for proximal ratio clipping. Finally, our empirical results support the hypothesis that the strong performance of IPPO and MAPPO is a direct result of enforcing such a trust region constraint via clipping in centralized training, and tuning the hyperparameters with regards to the number of agents, as predicted by our theoretical analysis.

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ICML Conference 2023 Conference Paper

Universal Morphology Control via Contextual Modulation

  • Zheng Xiong
  • Jacob Beck
  • Shimon Whiteson

Learning a universal policy across different robot morphologies can significantly improve learning efficiency and generalization in continuous control. However, it poses a challenging multi-task reinforcement learning problem, as the optimal policy may be quite different across robots and critically depend on the morphology. Existing methods utilize graph neural networks or transformers to handle heterogeneous state and action spaces across different morphologies, but pay little attention to the dependency of a robot’s control policy on its morphology context. In this paper, we propose a hierarchical architecture to better model this dependency via contextual modulation, which includes two key submodules: (1) Instead of enforcing hard parameter sharing across robots, we use hypernetworks to generate morphology-dependent control parameters; (2) We propose a fixed attention mechanism that solely depends on the morphology to modulate the interactions between different limbs in a robot. Experimental results show that our method not only improves learning performance on a diverse set of training robots, but also generalizes better to unseen morphologies in a zero-shot fashion. The code is publicly available at https: //github. com/MasterXiong/ModuMorph.

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ICLR Conference 2020 Conference Paper

AMRL: Aggregated Memory For Reinforcement Learning

  • Jacob Beck
  • Kamil Ciosek
  • Sam Devlin
  • Sebastian Tschiatschek
  • Cheng Zhang 0005
  • Katja Hofmann

In many partially observable scenarios, Reinforcement Learning (RL) agents must rely on long-term memory in order to learn an optimal policy. We demonstrate that using techniques from NLP and supervised learning fails at RL tasks due to stochasticity from the environment and from exploration. Utilizing our insights on the limitations of traditional memory methods in RL, we propose AMRL, a class of models that can learn better policies with greater sample efficiency and are resilient to noisy inputs. Specifically, our models use a standard memory module to summarize short-term context, and then aggregate all prior states from the standard model without respect to order. We show that this provides advantages both in terms of gradient decay and signal-to-noise ratio over time. Evaluating in Minecraft and maze environments that test long-term memory, we find that our model improves average return by 19% over a baseline that has the same number of parameters and by 9% over a stronger baseline that has far more parameters.

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