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Toward Full Autonomous Laboratory Instrumentation Control with Large Language Models

arXiv:2604.03286v1 Announce Type: new Abstract: The control of complex laboratory instrumentation often requires significant programming expertise, creating a barrier for researchers lacking computational skills. This work explores the potential of large language models (LLMs), such as ChatGPT, and LLM-based artificial intelligence (AI) agents to enable efficient programming and automation of scientific equipment. Through a case study involving the implementation of a setup that can be used as a single-pixel camera or a scanning photocurrent microscope, we demonstrate how ChatGPT can facilitate the creation of custom scripts for instrumentation control, significantly reducing the technical barrier for experimental customization. Building on this capability, we further illustrate how LLM-assisted tools can be extended into autonomous AI agents capable of independently operating laboratory instruments and iteratively refining control strategies. This approach underscores the transformative role of LLM-based tools and AI agents in democratizing laboratory automation and accelerating scientific progress.

Generative Chemical Language Models for Energetic Materials Discovery

arXiv:2604.03304v1 Announce Type: cross Abstract: The discovery of new energetic materials remains a pressing challenge hindered by limited availability of high-quality data. To address this, we have developed generative molecular language models that have been pretrained on extensive chemical data and then fine-tuned with curated energetic materials datasets. This transfer-learning strategy extends the chemical language model capabilities beyond the pharmacological space in which they have been predominantly developed, offering a framework applicable to other data-spare discovery problems. Furthermore, we discuss the benefits of fragment-based molecular encodings for chemical language models, in particular in constructing synthetically accessible structures. Together, these advances provide a foundation for accelerating the design of next-generation energetic materials with demanding performance requirements.

PATHFINDER: Multi-objective discovery in structural and spectral spaces

arXiv:2604.04194v1 Announce Type: cross Abstract: Automated decision-making is becoming key for automated characterization including electron and scanning probe microscopies and nano indentation. Most machine learning driven workflows optimize a single predefined objective and tend to converge prematurely on familiar responses, overlooking rare but scientifically important states. More broadly, the challenge is not only where to measure next, but how to coordinate exploration across structural, spectral, and measurement spaces under finite experimental budgets while balancing target-driven optimization with novelty discovery. Here we introduce PATHFINDER, a framework for autonomous microscopy that combines novelty driven exploration with optimization, helping the system discover more diverse and useful representations across structural, spectral, and measurement spaces. By combining latent space representations of local structure, surrogate modeling of functional response, and Pareto-based acquisition, the framework selects measurements that balance novelty discovery in feature and object space and are informative and experimentally actionable. Benchmarked on pre acquired STEM EELS data and realized experimentally in scanning probe microscopy of ferroelectric materials, this approach expands the accessible structure property landscape and avoids collapse onto a single apparent optimum. These results point to a new mode of autonomous microscopy that is not only optimization-driven, but also discovery-oriented, broad in its search, and responsive to human guidance.

The Infinite-Dimensional Nature of Spectroscopy and Why Models Succeed, Fail, and Mislead

arXiv:2604.04717v1 Announce Type: cross Abstract: Machine learning (ML) models have achieved strikingly high accuracies in spectroscopic classification tasks, often without a clear proof that those models used chemically meaningful features. Existing studies have linked these results to data preprocessing choices, noise sensitivity, and model complexity, but no unifying explanation is available so far. In this work, we show that these phenomena arise naturally from the intrinsic high dimensionality of spectral data. Using a theoretical analysis grounded in the Feldman-Hajek theorem and the concentration of measure, we show that even infinitesimal distributional differences, caused by noise, normalisation, or instrumental artefacts, may become perfectly separable in high-dimensional spaces. Through a series of specific experiments on synthetic and real fluorescence spectra, we illustrate how models can achieve near-perfect accuracy even when chemical distinctions are absent, and why feature-importance maps may highlight spectrally irrelevant regions. We provide a rigorous theoretical framework, confirm the effect experimentally, and conclude with practical recommendations for building and interpreting ML models in spectroscopy.
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