arXiv subjects

Soumik Sarkar

Publications and source records attributed to Soumik Sarkar.

At least 37 records · Page 2Linked to original sources

arXiv2025

In-Context Adaptation of VLMs for Few-Shot Cell Detection in Optical Microscopy

Foundation vision-language models (VLMs) excel on natural images, but their utility for biomedical microscopy remains underexplored. In this paper, we investigate how in-context learning enables state-of-the-art VLMs to perform few-shot object detection when large annotated datasets are unavailable, as is often the case with microscopic images. We introduce the Micro-OD benchmark, a curated collection of 252 images specifically curated for in-context learning, with bounding-box annotations spanning 11 cell types across four sources, including two in-lab expert-annotated sets. We systematically evaluate eight VLMs under few-shot conditions and compare variants with and without implicit test-time reasoning tokens. We further implement a hybrid Few-Shot Object Detection (FSOD) pipeline that combines a detection head with a VLM-based few-shot classifier, which enhances the few-shot performance of recent VLMs on our benchmark. Across datasets, we observe that zero-shot performance is weak due to the domain gap; however, few-shot support consistently improves detection, with marginal gains achieved after six shots. We observe that models with reasoning tokens are more effective for end-to-end localization, whereas simpler variants are more suitable for classifying pre-localized crops. Our results highlight in-context adaptation as a practical path for microscopy, and our benchmark provides a reproducible testbed for advancing open-vocabulary detection in biomedical imaging.

cs.CV↗

arXiv2025

Reinforcement Learning for Autonomous Point-to-Point UAV Navigation

Unmanned Aerial Vehicles (UAVs) are increasingly used in automated inspection, delivery, and navigation tasks that require reliable autonomy. This project develops a reinforcement learning (RL) approach to enable a single UAV to autonomously navigate between predefined points without manual intervention. The drone learns navigation policies through trial-and-error interaction, using a custom reward function that encourages goal-reaching efficiency while penalizing collisions and unsafe behavior. The control system integrates ROS with a Gym-compatible training environment, enabling flexible deployment and testing. After training, the learned policy is deployed on a real UAV platform and evaluated under practical conditions. Results show that the UAV can successfully perform autonomous navigation with minimal human oversight, demonstrating the viability of RL-based control for point-to-point drone operations in real-world scenarios.

cs.RO↗

arXiv2025

ProFusion: 3D Reconstruction of Protein Complex Structures from Multi-view AFM Images

AI-based in silico methods have improved protein structure prediction but often struggle with large protein complexes (PCs) involving multiple interacting proteins due to missing 3D spatial cues. Experimental techniques like Cryo-EM are accurate but costly and time-consuming. We present ProFusion, a hybrid framework that integrates a deep learning model with Atomic Force Microscopy (AFM), which provides high-resolution height maps from random orientations, naturally yielding multi-view data for 3D reconstruction. However, generating a large-scale AFM imaging data set sufficient to train deep learning models is impractical. Therefore, we developed a virtual AFM framework that simulates the imaging process and generated a dataset of ~542,000 proteins with multi-view synthetic AFM images. We train a conditional diffusion model to synthesize novel views from unposed inputs and an instance-specific Neural Radiance Field (NeRF) model to reconstruct 3D structures. Our reconstructed 3D protein structures achieve an average Chamfer Distance within the AFM imaging resolution, reflecting high structural fidelity. Our method is extensively validated on experimental AFM images of various PCs, demonstrating strong potential for accurate, cost-effective protein complex structure prediction and rapid iterative validation using AFM experiments.

cs.CV↗

arXiv2025

Balancing Utility and Privacy: Dynamically Private SGD with Random Projection

Stochastic optimization is a pivotal enabler in modern machine learning, producing effective models for various tasks. However, several existing works have shown that model parameters and gradient information are susceptible to privacy leakage. Although Differentially Private SGD (DPSGD) addresses privacy concerns, its static noise mechanism impacts the error bounds for model performance. Additionally, with the exponential increase in model parameters, efficient learning of these models using stochastic optimizers has become more challenging. To address these concerns, we introduce the Dynamically Differentially Private Projected SGD (D2P2-SGD) optimizer. In D2P2-SGD, we combine two important ideas: (i) dynamic differential privacy (DDP) with automatic gradient clipping and (ii) random projection with SGD, allowing dynamic adjustment of the tradeoff between utility and privacy of the model. It exhibits provably sub-linear convergence rates across different objective functions, matching the best available rate. The theoretical analysis further suggests that DDP leads to better utility at the cost of privacy, while random projection enables more efficient model learning. Extensive experiments across diverse datasets show that D2P2-SGD remarkably enhances accuracy while maintaining privacy. Our code is available here.

cs.LG↗

arXiv2025

Decentralized Relaxed Smooth Optimization with Gradient Descent Methods

$L_0$-smoothness, which has been pivotal to advancing decentralized optimization theory, is often fairly restrictive for modern tasks like deep learning. The recent advent of relaxed $(L_0,L_1)$-smoothness condition enables improved convergence rates for gradient methods. Despite centralized advances, its decentralized extension remains unexplored and challenging. In this work, we propose the first general framework for decentralized gradient descent (DGD) under $(L_0,L_1)$-smoothness by introducing novel analysis techniques. For deterministic settings, our method with adaptive clipping achieves the best-known convergence rates for convex/nonconvex functions without prior knowledge of $L_0$ and $L_1$ and bounded gradient assumption. In stochastic settings, we derive complexity bounds and identify conditions for improved complexity bound in convex optimization. The empirical validation with real datasets demonstrates gradient-norm-dependent smoothness, bridging theory and practice for $(L_0,L_1)$-decentralized optimization algorithms.

math.OC↗

arXiv2025

Data-driven Kinematic Modeling in Soft Robots: System Identification and Uncertainty Quantification

Precise kinematic modeling is critical in calibration and controller design for soft robots, yet remains a challenging issue due to their highly nonlinear and complex behaviors. To tackle the issue, numerous data-driven machine learning approaches have been proposed for modeling nonlinear dynamics. However, these models suffer from prediction uncertainty that can negatively affect modeling accuracy, and uncertainty quantification for kinematic modeling in soft robots is underexplored. In this work, using limited simulation and real-world data, we first investigate multiple linear and nonlinear machine learning models commonly used for kinematic modeling of soft robots. The results reveal that nonlinear ensemble methods exhibit the most robust generalization performance. We then develop a conformal kinematic modeling framework for soft robots by utilizing split conformal prediction to quantify predictive position uncertainty, ensuring distribution-free prediction intervals with a theoretical guarantee.

cs.RO↗

arXiv2025

Predicting Mild Cognitive Impairment Using Naturalistic Driving and Trip Destination Modeling

Understanding the relationship between mild cognitive impairment (MCI) and driving behavior is essential for enhancing road safety, particularly among older adults. This study introduces a novel approach by incorporating specific trip destinations-such as home, work, medical appointments, social activities, and errands-using geohashing to analyze the driving habits of older drivers in Nebraska. We employed a two-fold methodology that combines data visualization with advanced machine learning models, including C5.0, Random Forest, and Support Vector Machines, to assess the effectiveness of these location-based variables in predicting cognitive impairment. Notably, the C5.0 model showed a robust and stable performance, achieving a median recall of 0.68, which indicates that our methodology accurately identifies cognitive impairment in drivers 68\% of the time. This emphasizes our model's capacity to reduce false negatives, a crucial factor given the profound implications of failing to identify impaired drivers. Our findings underscore the innovative use of life-space variables in understanding and predicting cognitive decline, offering avenues for early intervention and tailored support for affected individuals.

cs.LG↗

arXiv2025

Can Pretrained Vision-Language Embeddings Alone Guide Robot Navigation?

Foundation models have revolutionized robotics by providing rich semantic representations without task-specific training. While many approaches integrate pretrained vision-language models (VLMs) with specialized navigation architectures, the fundamental question remains: can these pretrained embeddings alone successfully guide navigation without additional fine-tuning or specialized modules? We present a minimalist framework that decouples this question by training a behavior cloning policy directly on frozen vision-language embeddings from demonstrations collected by a privileged expert. Our approach achieves a 74% success rate in navigation to language-specified targets, compared to 100% for the state-aware expert, though requiring 3.2 times more steps on average. This performance gap reveals that pretrained embeddings effectively support basic language grounding but struggle with long-horizon planning and spatial reasoning. By providing this empirical baseline, we highlight both the capabilities and limitations of using foundation models as drop-in representations for embodied tasks, offering critical insights for robotics researchers facing practical design tradeoffs between system complexity and performance in resource-constrained scenarios. Our code is available at https://github.com/oadamharoon/text2nav

cs.RO↗

arXiv2025

ReinDSplit: Reinforced Dynamic Split Learning for Pest Recognition in Precision Agriculture

To empower precision agriculture through distributed machine learning (DML), split learning (SL) has emerged as a promising paradigm, partitioning deep neural networks (DNNs) between edge devices and servers to reduce computational burdens and preserve data privacy. However, conventional SL frameworks' one-split-fits-all strategy is a critical limitation in agricultural ecosystems where edge insect monitoring devices exhibit vast heterogeneity in computational power, energy constraints, and connectivity. This leads to straggler bottlenecks, inefficient resource utilization, and compromised model performance. Bridging this gap, we introduce ReinDSplit, a novel reinforcement learning (RL)-driven framework that dynamically tailors DNN split points for each device, optimizing efficiency without sacrificing accuracy. Specifically, a Q-learning agent acts as an adaptive orchestrator, balancing workloads and latency thresholds across devices to mitigate computational starvation or overload. By framing split layer selection as a finite-state Markov decision process, ReinDSplit convergence ensures that highly constrained devices contribute meaningfully to model training over time. Evaluated on three insect classification datasets using ResNet18, GoogleNet, and MobileNetV2, ReinDSplit achieves 94.31% accuracy with MobileNetV2. Beyond agriculture, ReinDSplit pioneers a paradigm shift in SL by harmonizing RL for resource efficiency, privacy, and scalability in heterogeneous environments.

cs.LG↗

arXiv2025

Latent Safety-Constrained Policy Approach for Safe Offline Reinforcement Learning

In safe offline reinforcement learning (RL), the objective is to develop a policy that maximizes cumulative rewards while strictly adhering to safety constraints, utilizing only offline data. Traditional methods often face difficulties in balancing these constraints, leading to either diminished performance or increased safety risks. We address these issues with a novel approach that begins by learning a conservatively safe policy through the use of Conditional Variational Autoencoders, which model the latent safety constraints. Subsequently, we frame this as a Constrained Reward-Return Maximization problem, wherein the policy aims to optimize rewards while complying with the inferred latent safety constraints. This is achieved by training an encoder with a reward-Advantage Weighted Regression objective within the latent constraint space. Our methodology is supported by theoretical analysis, including bounds on policy performance and sample complexity. Extensive empirical evaluation on benchmark datasets, including challenging autonomous driving scenarios, demonstrates that our approach not only maintains safety compliance but also excels in cumulative reward optimization, surpassing existing methods. Additional visualizations provide further insights into the effectiveness and underlying mechanisms of our approach.

cs.LG↗

arXiv2025

TerraIncognita: A Dynamic Benchmark for Species Discovery Using Frontier Models

The rapid global loss of biodiversity, particularly among insects, represents an urgent ecological crisis. Current methods for insect species discovery are manual, slow, and severely constrained by taxonomic expertise, hindering timely conservation actions. We introduce TerraIncognita, a dynamic benchmark designed to evaluate state-of-the-art multimodal models for the challenging problem of identifying unknown, potentially undescribed insect species from image data. Our benchmark dataset combines a mix of expertly annotated images of insect species likely known to frontier AI models, and images of rare and poorly known species, for which few/no publicly available images exist. These images were collected from underexplored biodiversity hotspots, realistically mimicking open-world discovery scenarios faced by ecologists. The benchmark assesses models' proficiency in hierarchical taxonomic classification, their capability to detect and abstain from out-of-distribution (OOD) samples representing novel species, and their ability to generate explanations aligned with expert taxonomic knowledge. Notably, top-performing models achieve over 90\% F1 at the Order level on known species, but drop below 2\% at the Species level, highlighting the sharp difficulty gradient from coarse to fine taxonomic prediction (Order $\rightarrow$ Family $\rightarrow$ Genus $\rightarrow$ Species). TerraIncognita will be updated regularly, and by committing to quarterly dataset expansions (of both known and novel species), will provide an evolving platform for longitudinal benchmarking of frontier AI methods. All TerraIncognita data, results, and future updates are available \href{https://baskargroup.github.io/TerraIncognita/}{here}.

cs.CV↗

arXiv2025

Towards Large Reasoning Models for Agriculture

Agricultural decision-making involves complex, context-specific reasoning, where choices about crops, practices, and interventions depend heavily on geographic, climatic, and economic conditions. Traditional large language models (LLMs) often fall short in navigating this nuanced problem due to limited reasoning capacity. We hypothesize that recent advances in large reasoning models (LRMs) can better handle such structured, domain-specific inference. To investigate this, we introduce AgReason, the first expert-curated open-ended science benchmark with 100 questions for agricultural reasoning. Evaluations across thirteen open-source and proprietary models reveal that LRMs outperform conventional ones, though notable challenges persist, with the strongest Gemini-based baseline achieving 36% accuracy. We also present AgThoughts, a large-scale dataset of 44.6K question-answer pairs generated with human oversight and equipped with synthetically generated reasoning traces. Using AgThoughts, we develop AgThinker, a suite of small reasoning models that can be run on consumer-grade GPUs, and show that our dataset can be effective in unlocking agricultural reasoning abilities in LLMs. Our project page is here: https://baskargroup.github.io/Ag_reasoning/

cs.LG↗

arXiv2025

DeCAF: Decentralized Consensus-And-Factorization for Low-Rank Adaptation of Foundation Models

Low-Rank Adaptation (LoRA) has emerged as one of the most effective, computationally tractable fine-tuning approaches for training Vision-Language Models (VLMs) and Large Language Models (LLMs). LoRA accomplishes this by freezing the pre-trained model weights and injecting trainable low-rank matrices, allowing for efficient learning of these foundation models even on edge devices. However, LoRA in decentralized settings still remains under explored, particularly for the theoretical underpinnings due to the lack of smoothness guarantee and model consensus interference (defined formally below). This work improves the convergence rate of decentralized LoRA (DLoRA) to match the rate of decentralized SGD by ensuring gradient smoothness. We also introduce DeCAF, a novel algorithm integrating DLoRA with truncated singular value decomposition (TSVD)-based matrix factorization to resolve consensus interference. Theoretical analysis shows TSVD's approximation error is bounded and consensus differences between DLoRA and DeCAF vanish as rank increases, yielding DeCAF's matching convergence rate. Extensive experiments across vision/language tasks demonstrate our algorithms outperform local training and rivals federated learning under both IID and non-IID data distributions.

cs.LG↗

arXiv2025

Zero-shot Sim-to-Real Transfer for Reinforcement Learning-based Visual Servoing of Soft Continuum Arms

Soft continuum arms (SCAs) soft and deformable nature presents challenges in modeling and control due to their infinite degrees of freedom and non-linear behavior. This work introduces a reinforcement learning (RL)-based framework for visual servoing tasks on SCAs with zero-shot sim-to-real transfer capabilities, demonstrated on a single section pneumatic manipulator capable of bending and twisting. The framework decouples kinematics from mechanical properties using an RL kinematic controller for motion planning and a local controller for actuation refinement, leveraging minimal sensing with visual feedback. Trained entirely in simulation, the RL controller achieved a 99.8% success rate. When deployed on hardware, it achieved a 67% success rate in zero-shot sim-to-real transfer, demonstrating robustness and adaptability. This approach offers a scalable solution for SCAs in 3D visual servoing, with potential for further refinement and expanded applications.

cs.RO↗

arXiv2025

SC-NeRF: NeRF-based Point Cloud Reconstruction using a Stationary Camera for Agricultural Applications

This paper presents a NeRF-based framework for point cloud (PCD) reconstruction, specifically designed for indoor high-throughput plant phenotyping facilities. Traditional NeRF-based reconstruction methods require cameras to move around stationary objects, but this approach is impractical for high-throughput environments where objects are rapidly imaged while moving on conveyors or rotating pedestals. To address this limitation, we develop a variant of NeRF-based PCD reconstruction that uses a single stationary camera to capture images as the object rotates on a pedestal. Our workflow comprises COLMAP-based pose estimation, a straightforward pose transformation to simulate camera movement, and subsequent standard NeRF training. A defined Region of Interest (ROI) excludes irrelevant scene data, enabling the generation of high-resolution point clouds (10M points). Experimental results demonstrate excellent reconstruction fidelity, with precision-recall analyses yielding an F-score close to 100.00 across all evaluated plant objects. Although pose estimation remains computationally intensive with a stationary camera setup, overall training and reconstruction times are competitive, validating the method's feasibility for practical high-throughput indoor phenotyping applications. Our findings indicate that high-quality NeRF-based 3D reconstructions are achievable using a stationary camera, eliminating the need for complex camera motion or costly imaging equipment. This approach is especially beneficial when employing expensive and delicate instruments, such as hyperspectral cameras, for 3D plant phenotyping. Future work will focus on optimizing pose estimation techniques and further streamlining the methodology to facilitate seamless integration into automated, high-throughput 3D phenotyping pipelines.

cs.CV↗

arXiv2025

Bidirectional Linear Recurrent Models for Sequence-Level Multisource Fusion

Sequence modeling is a critical yet challenging task with wide-ranging applications, especially in time series forecasting for domains like weather prediction, temperature monitoring, and energy load forecasting. Transformers, with their attention mechanism, have emerged as state-of-the-art due to their efficient parallel training, but they suffer from quadratic time complexity, limiting their scalability for long sequences. In contrast, recurrent neural networks (RNNs) offer linear time complexity, spurring renewed interest in linear RNNs for more computationally efficient sequence modeling. In this work, we introduce BLUR (Bidirectional Linear Unit for Recurrent network), which uses forward and backward linear recurrent units (LRUs) to capture both past and future dependencies with high computational efficiency. BLUR maintains the linear time complexity of traditional RNNs, while enabling fast parallel training through LRUs. Furthermore, it offers provably stable training and strong approximation capabilities, making it highly effective for modeling long-term dependencies. Extensive experiments on sequential image and time series datasets reveal that BLUR not only surpasses transformers and traditional RNNs in accuracy but also significantly reduces computational costs, making it particularly suitable for real-world forecasting tasks. Our code is available here.

cs.LG↗

arXiv2025

Geometry Matters: Benchmarking Scientific ML Approaches for Flow Prediction around Complex Geometries

Rapid and accurate simulations of fluid dynamics around complicated geometric bodies are critical in a variety of engineering and scientific applications, including aerodynamics and biomedical flows. However, while scientific machine learning (SciML) has shown considerable promise, most studies in this field are limited to simple geometries, and complex, real-world scenarios are underexplored. This paper addresses this gap by benchmarking diverse SciML models, including neural operators and vision transformer-based foundation models, for fluid flow prediction over intricate geometries. Using a high-fidelity dataset of steady-state flows across various geometries, we evaluate the impact of geometric representations -- Signed Distance Fields (SDF) and binary masks -- on model accuracy, scalability, and generalization. Central to this effort is the introduction of a novel, unified scoring framework that integrates metrics for global accuracy, boundary layer fidelity, and physical consistency to enable a robust, comparative evaluation of model performance. Our findings demonstrate that newer foundation models significantly outperform neural operators, particularly in data-limited scenarios, and that SDF representations yield superior results with sufficient training data. Despite these promises, all models struggle with out-of-distribution generalization, highlighting a critical challenge for future SciML applications. By advancing both evaluation models and modeling capabilities, our work paves the way for robust and scalable ML solutions for fluid dynamics across complex geometries.

cs.LG↗

arXiv2025

Optimizing Navigation And Chemical Application in Precision Agriculture With Deep Reinforcement Learning And Conditional Action Tree

This paper presents a novel reinforcement learning (RL)-based planning scheme for optimized robotic management of biotic stresses in precision agriculture. The framework employs a hierarchical decision-making structure with conditional action masking, where high-level actions direct the robot's exploration, while low-level actions optimize its navigation and efficient chemical spraying in affected areas. The key objectives of optimization include improving the coverage of infected areas with limited battery power and reducing chemical usage, thus preventing unnecessary spraying of healthy areas of the field. Our numerical experimental results demonstrate that the proposed method, Hierarchical Action Masking Proximal Policy Optimization (HAM-PPO), significantly outperforms baseline practices, such as LawnMower navigation + indiscriminate spraying (Carpet Spray), in terms of yield recovery and resource efficiency. HAM-PPO consistently achieves higher yield recovery percentages and lower chemical costs across a range of infection scenarios. The framework also exhibits robustness to observation noise and generalizability under diverse environmental conditions, adapting to varying infection ranges and spatial distribution patterns.

cs.RO↗