arXiv subjects

Boris N. Slautin

Publications and source records attributed to Boris N. Slautin.

15 recordsLinked to original sources

arXiv2026

Hierarchical automation of scanning probe microscopy through agentic orchestration and algorithmic control

Rapid advances in agentic artificial intelligence enable scientific systems to interpret open-ended objectives, combine heterogeneous information, invoke specialized tools, and revise experimental strategies as evidence accumulates. However, physical experimentation also contains many tasks for which agentic reasoning provides little advantage and can reduce reliability. Quantitative analysis, optimization, spatial targeting, validation, and instrument execution are often better posed as deterministic or algorithmic operations with explicit objectives and verifiable outputs. Here, we introduce a hierarchical architecture for autonomous experimentation that separates these roles. Agentic components interpret scientific intent, construct task-dependent experimental representations, evaluate accumulated evidence, and select high-level actions, whereas deterministic algorithms perform numerical analysis, coordinate selection, validation, and physical execution. We implement this architecture in piezoresponse force microscopy. Starting from a broad scientific question concerning the relation between local domain structure and polarization switching, the system constructs spatial descriptors from multichannel imaging, selects and analyzes local hysteresis measurements, adapts the spectroscopy waveform, and terminates the experiment when additional measurements cease to provide new evidence. The autonomous trajectory also identifies a confounding relationship between polarization state and domain-wall proximity and recognizes that the requested contrast is not independently represented within the available field of view. These results demonstrate a route toward scientific autonomy in which agents determine what evidence is required while algorithms determine how that evidence is acquired reproducibly and within validated physical constraints.

cond-mat.mtrl-sci↗

arXiv2026

Beyond FAIR Data: Instrument Traces for Active and Autonomous Scientific Experimentation

Artificial intelligence is turning scientific instruments into active systems in which observations can determine what is measured next. We argue that this creates an additional scientific record, the experimental trajectory, complementing sample provenance, acquired data and metadata, and analysis workflows. Instrument Traces should ultimately be synchronized with Sample Traces describing specimen evolution and Decision Traces recording human or algorithmic choices. We reconstruct an Instrument Trace retrospectively from a longitudinal AFM/PFM archive containing 118,000 timestamped events from 2023-2026. Conventional saved files reveal material campaigns, latent probe and calibration states, session-level complexity, experimental decision grammar, and composite tuning actions. They also expose what is missing, including unsaved tuning and failures, explicit sample/probe identities, complete timing, exogenous state, and decision rationale. We therefore propose a prospective trace architecture that records synchronized sample, instrument, and decision histories, enabling reproducible autonomy, predictive maintenance, counterfactual analysis, operator training, and transfer across facilities.

cs.DL↗

arXiv2026

PATHFINDER: Multi-objective discovery in structural and spectral spaces

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.

cond-mat.mtrl-sci↗

arXiv2026

Novelty-Driven Target-Space Discovery in Automated Electron and Scanning Probe Microscopy

Modern automated microscopy faces a fundamental discovery challenge: in many systems, the most important scientific information does not reside in the immediately visible image features, but in the target space of sequentially acquired spectra or functional responses, making it essential to develop strategies that can actively search for new behaviors rather than simply optimize known objectives. Here, we developed a deep-kernel-learning BEACON framework that is explicitly designed to guide discovery in the target space by learning structure-property relationships during the experiment and using that evolving model to seek diverse response regimes. We first established the method through demonstration workflows built on pre-acquired ground-truth datasets, which enabled direct benchmarking against classical acquisition strategies and allowed us to define a set of monitoring functions for comparing exploration quality, target-space coverage, and surrogate-model behavior in a transparent and reproducible manner. This benchmarking framework provides a practical basis for evaluating discovery-driven algorithms, not just optimization performance. We then operationalized and deployed the workflow on STEM, showing that the approach can transition from offline validation to real experimental implementation. To support adoption and extension by the broader community, the associated notebooks are available, allowing users to reproduce the workflows, test the benchmarks, and adapt the method to their own instruments and datasets.

cs.LG↗

arXiv2026

Dynamic Multiband Microscopy: A Universal Paradigm for Quantitative Nanoscale Metrology

Scanning Probe Microscopy (SPM) is the primary tool for exploring nanoscale functionality, yet standard single-frequency operation is fundamentally limited, because the dynamic tip-sample interaction is mathematically underdetermined. While advanced methods such as Dual Amplitude Resonance Tracking (DART) and Band Excitation (BE) address this by tracking resonance, they face critical limitations: DART suffers from feedback instability on complex topographies, while Band Excitation is constrained by severe trade-offs between spectral resolution and acquisition speed. Here, we introduce Dynamic Multiband Microscopy (DMM), a general framework that bridges these gaps by combining multifrequency excitation with continuous frequency sweeping. We implement this within an automated experimental workflow that autonomously identifies and targets measurement points of interest. In combination with quantitative interferometric detection, this approach brings SPM to the fundamental limits of noise and spectral sensitivity. Validated on ferroelectric nanofibers, this platform enables simultaneous, crosstalk-free 3D polarization mapping, establishing a universal framework for autonomous, high-fidelity nanoscale metrology.

cond-mat.mtrl-sci↗

arXiv2025

Rewards-based image analysis in microscopy

Imaging and hyperspectral data analysis is central to progress across biology, medicine, chemistry, and physics. The core challenge lies in converting high-resolution or high-dimensional datasets into interpretable representations that enable insight into the underlying physical or chemical properties of a system. Traditional analysis relies on expert-designed, multistep workflows, such as denoising, feature extraction, clustering, dimensionality reduction, and physics-based deconvolution, or on machine learning (ML) methods that accelerate individual steps. Both approaches, however, typically demand significant human intervention, including hyperparameter tuning and data labeling. Achieving the next level of autonomy in scientific imaging requires designing effective reward-based workflows that guide algorithms toward best data representation for human or automated decision-making. Here, we discuss recent advances in reward-based workflows for image analysis, which capture key elements of human reasoning and exhibit strong transferability across various tasks. We highlight how reward-driven approaches enable a shift from supervised black-box models toward explainable, unsupervised optimization on the examples of Scanning Probe and Electron Microscopies. Such reward-based frameworks are promising for a broad range of applications, including classification, regression, structure-property mapping, and general hyperspectral data processing.

eess.IV↗

arXiv2025

Bayesian Co-Navigation of a Computational Physical Model and AFM Experiment to Autonomously Survey a Combinatorial Materials Library

Building autonomous experiment workflows requires transcending beyond the data-driven surrogate models to incorporate and dynamically refine physical theory during exploration. Here we demonstrate the first fully automated experimental realization of Bayesian co-navigation - a framework in which an autonomous agent simultaneously runs a physical experiment and a computationally expensive physical model. Using an automated AFM platform coupled to a kinetic Monte Carlo (kMC) model of thin-film growth, the system infers a set of effective bond energies for the (CrTaWV)x-Mo(1-x) pseudo-binary combinatorial library, progressively adjusting the kMC parameters to decrease the epistemic disparity between simulation and experiment. This real-time theoretical refinement enables the kMC model to capture the behavior of the specific materials system and reveals the mechanistic role of hetero-bonding in governing surface diffusion. Together, these results establish co-navigation as a general strategy for tightly integrating physical models with autonomous experimental platforms to produce interpretable and continually self-correcting theoretical modelling of complex materials systems.

cond-mat.mtrl-sci↗

arXiv2025

Reward driven discovery of the optimal microstructure representations with invariant variational autoencoders

Microscopy techniques generate vast amounts of complex image data that in principle can be used to discover simpler, interpretable, and parsimonious forms to reveal the underlying physical structures, such as elementary building blocks in molecular systems or order parameters and phases in crystalline materials. Variational Autoencoders (VAEs) provide a powerful means of constructing such low-dimensional representations, but their performance heavily depends on multiple non-myopic design choices, which are often optimized through trial-and-error and empirical analysis. To enable automated and unbiased optimization of VAE workflows, we investigated reward-based strategies for evaluating latent space representations. Using Piezoresponse Force Microscopy data as a model system, we examined multiple policies and reward functions that can serve as a foundation for automated optimization. Our analysis shows that approximating the latent space with Gaussian Mixture Models (GMM) and Bayesian Gaussian Mixture Models (BGMM) provides a strong basis for constructing reward functions capable of estimating model efficiency and guiding the search for optimal parsimonious representations.

cs.LG↗

arXiv2025

Attention-Based Explainability for Structure-Property Relationships

Machine learning methods are emerging as a universal paradigm for constructing correlative structure-property relationships in materials science based on multimodal characterization. However, this necessitates development of methods for physical interpretability of the resulting correlative models. Here, we demonstrate the potential of attention-based neural networks for revealing structure-property relationships and the underlying physical mechanisms, using the ferroelectric properties of PbTiO3 thin films as a case study. Through the analysis of attention scores, we disentangle the influence of distinct domain patterns on the polarization switching process. The attention-based Transformer model is explored both as a direct interpretability tool and as a surrogate for explaining representations learned via unsupervised machine learning, enabling the identification of physically grounded correlations. We compare attention-derived interpretability scores with classical SHapley Additive exPlanations (SHAP) analysis and show that, in contrast to applications in natural language processing, attention mechanisms in materials science exhibit high efficiency in highlighting meaningful structural features.

cond-mat.mtrl-sci↗

arXiv2025

Materials Discovery in Combinatorial and High-throughput Synthesis and Processing: A New Frontier for SPM

For over three decades, scanning probe microscopy (SPM) has been a key method for exploring material structures and functionalities at nanometer and often atomic scales in ambient, liquid, and vacuum environments. Historically, SPM applications have predominantly been downstream, with images and spectra serving as a qualitative source of data on the microstructure and properties of materials, and in rare cases of fundamental physical knowledge. However, the fast-growing developments in accelerated material synthesis via self-driving labs and established applications such as combinatorial spread libraries are poised to change this paradigm. Rapid synthesis demands matching capabilities to probe structure and functionalities of materials on small scales and with high throughput. SPM inherently meets these criteria, offering a rich and diverse array of data from a single measurement. Here, we overview SPM methods applicable to these emerging applications and emphasize their quantitativeness, focusing on piezoresponse force microscopy, electrochemical strain microscopy, conductive, and surface photovoltage measurements. We discuss the challenges and opportunities ahead, asserting that SPM will play a crucial role in closing the loop from material prediction and synthesis to characterization.

cond-mat.mtrl-sci↗

arXiv2025

Integrating Predictive and Generative Capabilities by Latent Space Design via the DKL-VAE Model

We introduce a Deep Kernel Learning Variational Autoencoder (VAE-DKL) framework that integrates the generative power of a Variational Autoencoder (VAE) with the predictive nature of Deep Kernel Learning (DKL). The VAE learns a latent representation of high-dimensional data, enabling the generation of novel structures, while DKL refines this latent space by structuring it in alignment with target properties through Gaussian Process (GP) regression. This approach preserves the generative capabilities of the VAE while enhancing its latent space for GP-based property prediction. We evaluate the framework on two datasets: a structured card dataset with predefined variational factors and the QM9 molecular dataset, where enthalpy serves as the target function for optimization. The model demonstrates high-precision property prediction and enables the generation of novel out-of-training subset structures with desired characteristics. The VAE-DKL framework offers a promising approach for high-throughput material discovery and molecular design, balancing structured latent space organization with generative flexibility.

cs.LG↗

arXiv2024

Measurements with Noise: Bayesian Optimization for Co-optimizing Noise and Property Discovery in Automated Experiments

We have developed a Bayesian optimization (BO) workflow that integrates intra-step noise optimization into automated experimental cycles. Traditional BO approaches in automated experiments focus on optimizing experimental trajectories but often overlook the impact of measurement noise on data quality and cost. Our proposed framework simultaneously optimizes both the target property and the associated measurement noise by introducing time as an additional input parameter, thereby balancing the signal-to-noise ratio and experimental duration. Two approaches are explored: a reward-driven noise optimization and a double-optimization acquisition function, both enhancing the efficiency of automated workflows by considering noise and cost within the optimization process. We validate our method through simulations and real-world experiments using Piezoresponse Force Microscopy (PFM), demonstrating the successful optimization of measurement duration and property exploration. Our approach offers a scalable solution for optimizing multiple variables in automated experimental workflows, improving data quality, and reducing resource expenditure in materials science and beyond.

cond-mat.mtrl-sci↗

arXiv2024

Bayesian Co-navigation: Dynamic Designing of the Materials Digital Twins via Active Learning

Scientific advancement is universally based on the dynamic interplay between theoretical insights, modelling, and experimental discoveries. However, this feedback loop is often slow, including delayed community interactions and the gradual integration of experimental data into theoretical frameworks. This challenge is particularly exacerbated in domains dealing with high-dimensional object spaces, such as molecules and complex microstructures. Hence, the integration of theory within automated and autonomous experimental setups, or theory in the loop automated experiment, is emerging as a crucial objective for accelerating scientific research. The critical aspect is not only to use theory but also on-the-fly theory updates during the experiment. Here, we introduce a method for integrating theory into the loop through Bayesian co-navigation of theoretical model space and experimentation. Our approach leverages the concurrent development of surrogate models for both simulation and experimental domains at the rates determined by latencies and costs of experiments and computation, alongside the adjustment of control parameters within theoretical models to minimize epistemic uncertainty over the experimental object spaces. This methodology facilitates the creation of digital twins of material structures, encompassing both the surrogate model of behavior that includes the correlative part and the theoretical model itself. While demonstrated here within the context of functional responses in ferroelectric materials, our approach holds promise for broader applications, the exploration of optical properties in nanoclusters, microstructure-dependent properties in complex materials, and properties of molecular systems. The analysis code that supports the funding is publicly available at https://github.com/Slautin/2024_Co-navigation/tree/main

cond-mat.mtrl-sci↗

arXiv2024

Unraveling the Impact of Initial Choices and In-Loop Interventions on Learning Dynamics in Autonomous Scanning Probe Microscopy

The current focus in Autonomous Experimentation (AE) is on developing robust workflows to conduct the AE effectively. This entails the need for well-defined approaches to guide the AE process, including strategies for hyperparameter tuning and high-level human interventions within the workflow loop. This paper presents a comprehensive analysis of the influence of initial experimental conditions and in-loop interventions on the learning dynamics of Deep Kernel Learning (DKL) within the realm of AE in Scanning Probe Microscopy. We explore the concept of 'seed effect', where the initial experiment setup has a substantial impact on the subsequent learning trajectory. Additionally, we introduce an approach of the seed point interventions in AE allowing the operator to influence the exploration process. Using a dataset from Piezoresponse Force Microscopy (PFM) on PbTiO3 thin films, we illustrate the impact of the 'seed effect' and in-loop seed interventions on the effectiveness of DKL in predicting material properties. The study highlights the importance of initial choices and adaptive interventions in optimizing learning rates and enhancing the efficiency of automated material characterization. This work offers valuable insights into designing more robust and effective AE workflows in microscopy with potential applications across various characterization techniques. The analysis code that supports the funding is publicly available at https://github.com/Slautin/2024_Seed_effect_DKL_BO.

cs.LG↗

arXiv2024

Co-orchestration of Multiple Instruments to Uncover Structure-Property Relationships in Combinatorial Libraries

The rapid growth of automated and autonomous instrumentations brings forth an opportunity for the co-orchestration of multimodal tools, equipped with multiple sequential detection methods, or several characterization tools to explore identical samples. This can be exemplified by the combinatorial libraries that can be explored in multiple locations by multiple tools simultaneously, or downstream characterization in automated synthesis systems. In the co-orchestration approaches, information gained in one modality should accelerate the discovery of other modalities. Correspondingly, the orchestrating agent should select the measurement modality based on the anticipated knowledge gain and measurement cost. Here, we propose and implement a co-orchestration approach for conducting measurements with complex observables such as spectra or images. The method relies on combining dimensionality reduction by variational autoencoders with representation learning for control over the latent space structure, and integrated into iterative workflow via multi-task Gaussian Processes (GP). This approach further allows for the native incorporation of the system's physics via a probabilistic model as a mean function of the GP. We illustrated this method for different modalities of piezoresponse force microscopy and micro-Raman on combinatorial $Sm-BiFeO_3$ library. However, the proposed framework is general and can be extended to multiple measurement modalities and arbitrary dimensionality of measured signals. The analysis code that supports the funding is publicly available at https://github.com/Slautin/2024_Co-orchestration.

cond-mat.mtrl-sci↗