arXiv subjects

Arpan Biswas

Publications and source records attributed to Arpan Biswas.

At least 19 recordsLinked to original sources

arXiv2026

Physically Constrained Ensemble Gaussian Process Modelling for Expensive Quantum Systems with Heteroskedastic Noise

Accurate modeling of quantum many-body systems often requires computationally expensive simulations such as Density Matrix Renormalization Group (DMRG) or Quantum Monte Carlo (QMC) calculations. These methods, while precise, impose significant time and resource constraints, limiting their use in exhaustive parameter exploration. Moreover, these expensive simulations can contain variable errors over the large unknown parameter space, which needs to be quantified and propagated. Thus, predictive modelling is required to estimate the functional space accurately over scarcely sampled data with heteroskedastic noise, while preserving the physical relevance of the estimation. Therefore, we present a Physically Constrained Ensemble Gaussian Process (pc-EGP) framework designed to efficiently model complex and noisy quantum systems under physical consistency constraints. The proposed method first enforces physical constraints as a user controlled weighted penalty to the data-driven loss function of the Gaussian Process (GP) surrogates. Then an ensemble of such GP models is trained with variable noisy simulations via numerical quadrature method where these multiple GP(s) at different nodes is integrated as a quadrature weighted average. We first demonstrate the framework on synthetically generated data before applying to quantum systems. In the first case study, we leverage DMRG simulations of the Bose-Hubbard Model to predict the critical interaction parameter Uc governing the superfluid-to-Mott-insulator transition. In the second case study, we demonstrate our method on QMC simulations, of a quantum liquid confined inside a nanoporous silicate with the goal of optimizing a chemical environment to realize a one-dimensional superfluid. Compared to conventional GP, pc-EGP achieves a better balance of accuracy and physically meaningful predictions.

physics.comp-ph↗

arXiv2026

Beyond Scalar Objectives: Expert-Feedback-Driven Autonomous Experimentation for Scientific Discovery at the Nanoscale

Self-driving laboratories or autonomous experimentation are emerging as transformative platforms for accelerating scientific discovery. Bayesian optimization (BO) is among the most widely used machine learning frameworks for these purposes, but these BO-based frameworks rely on predefined scalar descriptors to guide experimentation. In many situations, the determination of an appropriate scalar descriptor can be challenging, and may fail to capture subtle yet scientifically important phenomena apparent to experts with interdisciplinary insight. To overcome this limitation, here we develop deep-kernel pairwise learning (DKPL), an approach for autonomous microscopy experiments which incorporates human expertise and interdisciplinary scientific knowledge into an active learning loop. Instead of relying on explicit scalar objectives, DKPL enables experts to directly evaluate which experimental output is more promising using interdisciplinary knowledge. DKPL then learns a latent utility function from these expert judgements to guide subsequent autonomous microscopy experiments. We demonstrate DKPL's performance in learning physically meaningful nanoscale structures while effectively prioritizing high-information measurement regions using an experimental model dataset with known ground truth. We further apply DKPL to analyze the character of ferroelectric domain walls, where we find DKPL capable of distinguishing between high and low characteristic domain-wall angles in bismuth ferrite, and able to discover both head-to-head and tail-to-tail domain-wall character in erbium manganite. This development establishes an approach to integrate expert knowledge into autonomous microscopy experiments and demonstrates a pathway toward expert-guided self-driving laboratories capable of addressing scientific problems beyond the limits of scalar-metrics-driven learning.

cs.LG↗

arXiv2026

Human-AI Collaborative Autonomous Experimentation With Proxy Modeling for Comparative Observation

Optimization for different tasks like material characterization, synthesis, and functional properties for desired applications over multi-dimensional control parameters need a rapid strategic search through active learning such as Bayesian optimization (BO). However, such high-dimensional experimental physical descriptors are complex and noisy, from which realization of a low-dimensional mathematical scalar metrics or objective functions can be erroneous. Moreover, in traditional purely data-driven autonomous exploration, such objective functions often ignore the subtle variation and key features of the physical descriptors, thereby can fail to discover unknown phenomenon of the material systems. To address this, here we present a proxy-modelled Bayesian optimization (px-BO) via on-the-fly teaming between human and AI agents. Over the loop of BO, instead of defining a mathematical objective function directly from the experimental data, we introduce a voting system on the fly where the new experimental outcome will be compared with existing experiments, and the human agents will choose the preferred samples. These human-guided comparisons are then transformed into a proxy-based objective function via fitting Bradley-Terry (BT) model. Then, to minimize human interaction, this iteratively trained proxy model also acts as an AI agent for future surrogate human votes. Finally, these surrogate votes are periodically validated by human agents, and the corrections are then learned by the proxy model on-the-fly. We demonstrated the performance of the proposed px-BO framework into simulated and BEPS data generated from PTO sample. We find that our approach provided better control of the domain experts for an improved search over traditional data-driven exploration, thus, signifies the importance of human-AI teaming in an accelerated and meaningful material space exploration.

cs.LG↗

arXiv2025

Physically-Constrained Autoencoder-Assisted Bayesian Optimization for Refinement of High-Dimensional Defect-Sensitive Single Crystalline Structure

Physical properties and functionalities of materials are dictated by global crystal structures as well as local defects. To establish a structure-property relationship, not only the crystallographic symmetry but also quantitative knowledge about defects are required. Here we present a hybrid Machine Learning framework that integrates a physically-constrained variational-autoencoder (pcVAE) with different Bayesian Optimization (BO) methods to systematically accelerate and improve crystal structure refinement with resolution of defects. We chose the pyrochlore structured Ho2Ti2O7 as a model system and employed the GSAS2 package for benchmarking crystallographic parameters from Rietveld refinement. However, the function space of these material systems is highly nonlinear, which limits optimizers like traditional Rietveld refinement, into trapping at local minima. Also, these naive methods don't provide an extensive learning about the overall function space, which is essential for large space, large time consuming explorations to identify various potential regions of interest. Thus, we present the approach of exploring the high Dimensional structure parameters of defect sensitive systems via pretrained pcVAE assisted BO and Sparse Axis Aligned BO. The pcVAE projects high-Dimensional diffraction data consisting of thousands of independently measured diffraction orders into a lowD latent space while enforcing scaling invariance and physical relevance. Then via BO methods, we aim to minimize the L2 norm based chisq errors in the real and latent spaces separately between experimental and simulated diffraction patterns, thereby steering the refinement towards potential optimum crystal structure parameters. We investigated and compared the results among different pcVAE assisted BO, non pcVAE assisted BO, and Rietveld refinement.

cond-mat.mtrl-sci↗

arXiv2025

A Fourier-Based Global Denoising Model for Smart Artifacts Removing of Microscopy Images

Microscopy such as Scanning Tunneling Microscopy (STM), Atomic Force Microscopy (AFM) and Scanning Electron Microscopy (SEM) are essential tools in material imaging at micro- and nanoscale resolutions to extract physical knowledge and materials structure-property relationships. However, tuning microscopy controls (e.g. scanning speed, current setpoint, tip bias etc.) to obtain a high-quality of images is a non-trivial and time-consuming effort. On the other hand, with sub-standard images, the key features are not accurately discovered due to noise and artifacts, leading to erroneous analysis. Existing denoising models mostly build on generalizing the weak signals as noises while the strong signals are enhanced as key features, which is not always the case in microscopy images, thus can completely erase a significant amount of hidden physical information. To address these limitations, we propose a global denoising model (GDM) to smartly remove artifacts of microscopy images while preserving weaker but physically important features. The proposed model is developed based on 1) first designing a two-imaging input channel of non-pair and goal specific pre-processed images with user-defined trade-off information between two channels and 2) then integrating a loss function of pixel- and fast Fourier-transformed (FFT) based on training the U-net model. We compared the proposed GDM with the non-FFT denoising model over STM-generated images of Copper(Cu) and Silicon(Si) materials, AFM-generated Pantoea sp.YR343 bio-film images and SEM-generated plastic degradation images. We believe this proposed workflow can be extended to improve other microscopy image quality and will benefit the experimentalists with the proposed design flexibility to smartly tune via domain-experts preferences.

eess.IV↗

arXiv2025

Beyond Optimization: Exploring Novelty Discovery in Autonomous Experiments

Autonomous experiments (AEs) are transforming how scientific research is conducted by integrating artificial intelligence with automated experimental platforms. Current AEs primarily focus on the optimization of a predefined target; while accelerating this goal, such an approach limits the discovery of unexpected or unknown physical phenomena. Here, we introduce a novel framework, INS2ANE (Integrated Novelty Score-Strategic Autonomous Non-Smooth Exploration), to enhance the discovery of novel phenomena in autonomous experimentation. Our method integrates two key components: (1) a novelty scoring system that evaluates the uniqueness of experimental results, and (2) a strategic sampling mechanism that promotes exploration of under-sampled regions even if they appear less promising by conventional criteria. We validate this approach on a pre-acquired dataset with a known ground truth comprising of image-spectral pairs. We further implement the process on autonomous scanning probe microscopy experiments. INS2ANE significantly increases the diversity of explored phenomena in comparison to conventional optimization routines, enhancing the likelihood of discovering previously unobserved phenomena. These results demonstrate the potential for AE to enhance the depth of scientific discovery; in combination with the efficiency provided by AEs, this approach promises to accelerate scientific research by simultaneously navigating complex experimental spaces to uncover new phenomena.

cs.LG↗

arXiv2025

Role of Large Language Models and Retrieval-Augmented Generation for Accelerating Crystalline Material Discovery: A Systematic Review

Large language models (LLMs) have emerged as powerful tools for knowledge-intensive tasks across domains. In materials science, to find novel materials for various energy efficient devices for various real-world applications, requires several time and cost expensive simulations and experiments. In order to tune down the uncharted material search space, minimizing the experimental cost, LLMs can play a bigger role to first provide an accelerated search of promising known material candidates. Furthermore, the integration of LLMs with domain-specific information via retrieval-augmented generation (RAG) is poised to revolutionize how researchers predict materials structures, analyze defects, discover novel compounds, and extract knowledge from literature and databases. In motivation to the potentials of LLMs and RAG in accelerating material discovery, this paper presents a broad and systematic review to examine the recent advancements in applying LLMs and RAG to key materials science problems. We survey state-of-the-art developments in crystal structure prediction, defect analysis, materials discovery, literature mining, database integration, and multi-modal retrieval, highlighting how combining LLMs with external knowledge sources enables new capabilities. We discuss the performance, limitations, and implications of these approaches, and outline future directions for leveraging LLMs to accelerate materials research and discovery for advancement in technologies in the area of electronics, optics, biomedical, and energy storage.

cond-mat.mtrl-sci↗

arXiv2025

A Systematic Review of Key Retrieval-Augmented Generation (RAG) Systems: Progress, Gaps, and Future Directions

Retrieval-Augmented Generation (RAG) represents a major advancement in natural language processing (NLP), combining large language models (LLMs) with information retrieval systems to enhance factual grounding, accuracy, and contextual relevance. This paper presents a comprehensive systematic review of RAG, tracing its evolution from early developments in open domain question answering to recent state-of-the-art implementations across diverse applications. The review begins by outlining the motivations behind RAG, particularly its ability to mitigate hallucinations and outdated knowledge in parametric models. Core technical components-retrieval mechanisms, sequence-to-sequence generation models, and fusion strategies are examined in detail. A year-by-year analysis highlights key milestones and research trends, providing insight into RAG's rapid growth. The paper further explores the deployment of RAG in enterprise systems, addressing practical challenges related to retrieval of proprietary data, security, and scalability. A comparative evaluation of RAG implementations is conducted, benchmarking performance on retrieval accuracy, generation fluency, latency, and computational efficiency. Persistent challenges such as retrieval quality, privacy concerns, and integration overhead are critically assessed. Finally, the review highlights emerging solutions, including hybrid retrieval approaches, privacy-preserving techniques, optimized fusion strategies, and agentic RAG architectures. These innovations point toward a future of more reliable, efficient, and context-aware knowledge-intensive NLP systems.

cs.CL↗

arXiv2025

Exploring the Capabilities of the Frontier Large Language Models for Nuclear Energy Research

The AI for Nuclear Energy workshop at Oak Ridge National Laboratory evaluated the potential of Large Language Models (LLMs) to accelerate fusion and fission research. Fourteen interdisciplinary teams explored diverse nuclear science challenges using ChatGPT, Gemini, Claude, and other AI models over a single day. Applications ranged from developing foundation models for fusion reactor control to automating Monte Carlo simulations, predicting material degradation, and designing experimental programs for advanced reactors. Teams employed structured workflows combining prompt engineering, deep research capabilities, and iterative refinement to generate hypotheses, prototype code, and research strategies. Key findings demonstrate that LLMs excel at early-stage exploration, literature synthesis, and workflow design, successfully identifying research gaps and generating plausible experimental frameworks. However, significant limitations emerged, including difficulties with novel materials designs, advanced code generation for modeling and simulation, and domain-specific details requiring expert validation. The successful outcomes resulted from expert-driven prompt engineering and treating AI as a complementary tool rather than a replacement for physics-based methods. The workshop validated AI's potential to accelerate nuclear energy research through rapid iteration and cross-disciplinary synthesis while highlighting the need for curated nuclear-specific datasets, workflow automation, and specialized model development. These results provide a roadmap for integrating AI tools into nuclear science workflows, potentially reducing development cycles for safer, more efficient nuclear energy systems while maintaining rigorous scientific standards.

physics.comp-ph↗

arXiv2025

A Bi-channel Aided Stitching of Atomic Force Microscopy Images

Microscopy is an essential tool in scientific research, enabling the visualization of structures at micro- and nanoscale resolutions. However, the field of microscopy often encounters limitations in field-of-view (FOV), restricting the amount of sample that can be imaged in a single capture. To overcome this limitation, image stitching techniques have been developed to seamlessly merge multiple overlapping images into a single, high-resolution composite. The images collected from microscope need to be optimally stitched before accurate physical information can be extracted from post analysis. However, the existing stitching tools either struggle to stitch images together when the microscopy images are feature sparse or cannot address all the transformations of images. To address these issues, we propose a bi-channel aided feature-based image stitching method and demonstrate its use on AFM generated biofilm images. The topographical channel image of AFM data captures the morphological details of the sample, and a stitched topographical image is desired for researchers. We utilize the amplitude channel of AFM data to maximize the matching features and to estimate the position of the original topographical images and show that the proposed bi-channel aided stitching method outperforms the traditional stitching approach. Furthermore, we found that the differentiation of the topographical images along the x-axis provides similar feature information to the amplitude channel image, which generalizes our approach when the amplitude images are not available. Here we demonstrated the application on AFM, but similar approaches could be employed of optical microscopy with brightfield and fluorescence channels. We believe this proposed workflow will benefit the experimentalist to avoid erroneous analysis and discovery due to incorrect stitching.

eess.IV↗

arXiv2025

Berezinskii-Kosterlitz-Thouless Renormalization Group Flow at a Quantum Phase Transition

We present a controlled numerical study of the Berezinskii-Kosterlitz-Thouless (BKT) transition in the one-dimensional Bose-Hubbard model at unit filling, providing evidence of the characteristic logarithmic finite-size scaling of the BKT transition. Employing density matrix renormalization group and quantum Monte Carlo simulations under periodic boundary conditions, together with a systematic finite-size scaling analysis of bipartite particle number fluctuations, we resolve boundary-induced complications that previously obscured critical scaling. We demonstrate that a suitably chosen central region under open boundaries reproduces universal RG signatures, reconciling earlier discrepancies. Finally, leveraging a non-parametric Bayesian analysis, we determine the critical interaction strength with high precision, establishing a benchmark for BKT physics in one-dimensional quantum models.

cond-mat.quant-gas↗

arXiv2024

SANE: Strategic Autonomous Non-Smooth Exploration for Multiple Optima Discovery in Multi-modal and Non-differentiable Black-box Functions

Both computational and experimental material discovery bring forth the challenge of exploring multidimensional and multimodal parameter spaces, such as phase diagrams of Hamiltonians with multiple interactions, composition spaces of combinatorial libraries, material structure image spaces, and molecular embedding spaces. Often these systems are black-box and time-consuming to evaluate, which resulted in strong interest towards active learning methods such as Bayesian optimization (BO). However, these systems are often noisy which make the black box function severely multi-modal and non-differentiable, where a vanilla BO can get overly focused near a single or faux optimum, deviating from the broader goal of scientific discovery. To address these limitations, here we developed Strategic Autonomous Non-Smooth Exploration (SANE) to facilitate an intelligent Bayesian optimized navigation with a proposed cost-driven probabilistic acquisition function to find multiple global and local optimal regions, avoiding the tendency to becoming trapped in a single optimum. To distinguish between a true and false optimal region due to noisy experimental measurements, a human (domain) knowledge driven dynamic surrogate gate is integrated with SANE. We implemented the gate-SANE into a pre-acquired Piezoresponse spectroscopy data of a ferroelectric combinatorial library with high noise levels in specific regions, and a piezoresponse force microscopy (PFM) hyperspectral data. SANE demonstrated better performance than classical BO to facilitate the exploration of multiple optimal regions and thereby prioritized learning with higher coverage of scientific values in autonomous experiments. Our work showcases the potential application of this method to real-world experiment, where such combined strategic and human intervening approaches can be critical to unlocking new discoveries in autonomous research.

cs.LG↗

arXiv2024

Towards accelerating physical discovery via non-interactive and interactive multi-fidelity Bayesian Optimization: Current challenges and future opportunities

Both computational and experimental material discovery bring forth the challenge of exploring multidimensional and often non-differentiable parameter spaces, such as phase diagrams of Hamiltonians with multiple interactions, composition spaces of combinatorial libraries, processing spaces, and molecular embedding spaces. Often these systems are expensive or time-consuming to evaluate a single instance, and hence classical approaches based on exhaustive grid or random search are too data intensive. This resulted in strong interest towards active learning methods such as Bayesian optimization (BO) where the adaptive exploration occurs based on human learning (discovery) objective. However, classical BO is based on a predefined optimization target, and policies balancing exploration and exploitation are purely data driven. In practical settings, the domain expert can pose prior knowledge on the system in form of partially known physics laws and often varies exploration policies during the experiment. Here, we explore interactive workflows building on multi-fidelity BO (MFBO), starting with classical (data-driven) MFBO, then structured (physics-driven) sMFBO, and extending it to allow human in the loop interactive iMFBO workflows for adaptive and domain expert aligned exploration. These approaches are demonstrated over highly non-smooth multi-fidelity simulation data generated from an Ising model, considering spin-spin interaction as parameter space, lattice sizes as fidelity spaces, and the objective as maximizing heat capacity. Detailed analysis and comparison show the impact of physics knowledge injection and on-the-fly human decisions for improved exploration, current challenges, and potential opportunities for algorithm development with combining data, physics and real time human decisions.

cs.LG↗

arXiv2023

Autonomous convergence of STM control parameters using Bayesian Optimization

Scanning Tunneling microscopy (STM) is a widely used tool for atomic imaging of novel materials and its surface energetics. However, the optimization of the imaging conditions is a tedious process due to the extremely sensitive tip-surface interaction, and thus limits the throughput efficiency. Here we deploy a machine learning (ML) based framework to achieve optimal-atomically resolved imaging conditions in real time. The experimental workflow leverages Bayesian optimization (BO) method to rapidly improve the image quality, defined by the peak intensity in the Fourier space. The outcome of the BO prediction is incorporated into the microscope controls, i.e., the current setpoint and the tip bias, to dynamically improve the STM scan conditions. We present strategies to either selectively explore or exploit across the parameter space. As a result, suitable policies are developed for autonomous convergence of the control-parameters. The ML-based framework serves as a general workflow methodology across a wide range of materials.

physics.app-ph↗

arXiv2023

Human-in-the-loop: The future of Machine Learning in Automated Electron Microscopy

Machine learning methods are progressively gaining acceptance in the electron microscopy community for de-noising, semantic segmentation, and dimensionality reduction of data post-acquisition. The introduction of the APIs by major instrument manufacturers now allows the deployment of ML workflows in microscopes, not only for data analytics but also for real-time decision-making and feedback for microscope operation. However, the number of use cases for real-time ML remains remarkably small. Here, we discuss some considerations in designing ML-based active experiments and pose that the likely strategy for the next several years will be human-in-the-loop automated experiments (hAE). In this paradigm, the ML learning agent directly controls beam position and image and spectroscopy acquisition functions, and human operator monitors experiment progression in real- and feature space of the system and tunes the policies of the ML agent to steer the experiment towards specific objectives.

cond-mat.mtrl-sci↗

arXiv2023

Autonomous synthesis of thin film materials with pulsed laser deposition enabled by in situ spectroscopy and automation

Synthesis of thin films has traditionally relied upon slow, sequential processes carried out with substantial human intervention, frequently utilizing a mix of experience and serendipity to optimize material structure and properties. With recent advances in autonomous systems which combine synthesis, characterization, and decision making with artificial intelligence (AI), large parameter spaces can be explored autonomously at rates beyond what is possible by human experimentalists, greatly accelerating discovery, optimization, and understanding in materials synthesis which directly address the grand challenges in synthesis science. Here, we demonstrate autonomous synthesis of a contemporary 2D material by combining the highly versatile pulsed laser deposition (PLD) technique with automation and machine learning (ML). We incorporated in situ and real-time spectroscopy, a high-throughput methodology, and cloud connectivity to enable autonomous synthesis workflows with PLD. Ultrathin WSe2 films were grown using co-ablation of two targets and showed a 10x increase in throughput over traditional PLD workflows. Gaussian process regression and Bayesian optimization were used with in situ Raman spectroscopy to autonomously discover two distinct growth windows and the process-property relationship after sampling only 0.25% of a large 4D parameter space. Any material that can be grown with PLD could be autonomously synthesized with our platform and workflows, enabling accelerated discovery and optimization of a vast number of materials.

cond-mat.mtrl-sci↗

arXiv2023

Combining Variational Autoencoders and Physical Bias for Improved Microscopy Data Analysis

Electron and scanning probe microscopy produce vast amounts of data in the form of images or hyperspectral data, such as EELS or 4D STEM, that contain information on a wide range of structural, physical, and chemical properties of materials. To extract valuable insights from these data, it is crucial to identify physically separate regions in the data, such as phases, ferroic variants, and boundaries between them. In order to derive an easily interpretable feature analysis, combining with well-defined boundaries in a principled and unsupervised manner, here we present a physics augmented machine learning method which combines the capability of Variational Autoencoders to disentangle factors of variability within the data and the physics driven loss function that seeks to minimize the total length of the discontinuities in images corresponding to latent representations. Our method is applied to various materials, including NiO-LSMO, BiFeO3, and graphene. The results demonstrate the effectiveness of our approach in extracting meaningful information from large volumes of imaging data. The fully notebook containing implementation of the code and analysis workflow is available at https://github.com/arpanbiswas52/PaperNotebooks

cs.LG↗

arXiv2023

A dynamic Bayesian optimized active recommender system for curiosity-driven Human-in-the-loop automated experiments

Optimization of experimental materials synthesis and characterization through active learning methods has been growing over the last decade, with examples ranging from measurements of diffraction on combinatorial alloys at synchrotrons, to searches through chemical space with automated synthesis robots for perovskites. In virtually all cases, the target property of interest for optimization is defined apriori with limited human feedback during operation. In contrast, here we present the development of a new type of human in the loop experimental workflow, via a Bayesian optimized active recommender system (BOARS), to shape targets on the fly, employing human feedback. We showcase examples of this framework applied to pre-acquired piezoresponse force spectroscopy of a ferroelectric thin film, and then implement this in real time on an atomic force microscope, where the optimization proceeds to find symmetric piezoresponse amplitude hysteresis loops. It is found that such features appear more affected by subsurface defects than the local domain structure. This work shows the utility of human-augmented machine learning approaches for curiosity-driven exploration of systems across experimental domains. The analysis reported here is summarized in Colab Notebook for the purpose of tutorial and application to other data: https://github.com/arpanbiswas52/varTBO

cs.LG↗