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Mar 26

Medical Image Registration via Neural Fields

Image registration is an essential step in many medical image analysis tasks. Traditional methods for image registration are primarily optimization-driven, finding the optimal deformations that maximize the similarity between two images. Recent learning-based methods, trained to directly predict transformations between two images, run much faster, but suffer from performance deficiencies due to model generalization and the inefficiency in handling individual image specific deformations. Here we present a new neural net based image registration framework, called NIR (Neural Image Registration), which is based on optimization but utilizes deep neural nets to model deformations between image pairs. NIR represents the transformation between two images with a continuous function implemented via neural fields, receiving a 3D coordinate as input and outputting the corresponding deformation vector. NIR provides two ways of generating deformation field: directly output a displacement vector field for general deformable registration, or output a velocity vector field and integrate the velocity field to derive the deformation field for diffeomorphic image registration. The optimal registration is discovered by updating the parameters of the neural field via stochastic gradient descent. We describe several design choices that facilitate model optimization, including coordinate encoding, sinusoidal activation, coordinate sampling, and intensity sampling. Experiments on two 3D MR brain scan datasets demonstrate that NIR yields state-of-the-art performance in terms of both registration accuracy and regularity, while running significantly faster than traditional optimization-based methods.

  • 11 authors
·
Jun 7, 2022

MessyKitchens: Contact-rich object-level 3D scene reconstruction

Monocular 3D scene reconstruction has recently seen significant progress. Powered by the modern neural architectures and large-scale data, recent methods achieve high performance in depth estimation from a single image. Meanwhile, reconstructing and decomposing common scenes into individual 3D objects remains a hard challenge due to the large variety of objects, frequent occlusions and complex object relations. Notably, beyond shape and pose estimation of individual objects, applications in robotics and animation require physically-plausible scene reconstruction where objects obey physical principles of non-penetration and realistic contacts. In this work we advance object-level scene reconstruction along two directions. First, we introduceMessyKitchens, a new dataset with real-world scenes featuring cluttered environments and providing high-fidelity object-level ground truth in terms of 3D object shapes, poses and accurate object contacts. Second, we build on the recent SAM 3D approach for single-object reconstruction and extend it with Multi-Object Decoder (MOD) for joint object-level scene reconstruction. To validate our contributions, we demonstrate MessyKitchens to significantly improve previous datasets in registration accuracy and inter-object penetration. We also compare our multi-object reconstruction approach on three datasets and demonstrate consistent and significant improvements of MOD over the state of the art. Our new benchmark, code and pre-trained models will become publicly available on our project website: https://messykitchens.github.io/.

  • 4 authors
·
Mar 17

Unsupervised and Unregistered Hyperspectral Image Super-Resolution with Mutual Dirichlet-Net

Hyperspectral images (HSI) provide rich spectral information that contributed to the successful performance improvement of numerous computer vision tasks. However, it can only be achieved at the expense of images' spatial resolution. Hyperspectral image super-resolution (HSI-SR) addresses this problem by fusing low resolution (LR) HSI with multispectral image (MSI) carrying much higher spatial resolution (HR). All existing HSI-SR approaches require the LR HSI and HR MSI to be well registered and the reconstruction accuracy of the HR HSI relies heavily on the registration accuracy of different modalities. This paper exploits the uncharted problem domain of HSI-SR without the requirement of multi-modality registration. Given the unregistered LR HSI and HR MSI with overlapped regions, we design a unique unsupervised learning structure linking the two unregistered modalities by projecting them into the same statistical space through the same encoder. The mutual information (MI) is further adopted to capture the non-linear statistical dependencies between the representations from two modalities (carrying spatial information) and their raw inputs. By maximizing the MI, spatial correlations between different modalities can be well characterized to further reduce the spectral distortion. A collaborative l_{2,1} norm is employed as the reconstruction error instead of the more common l_2 norm, so that individual pixels can be recovered as accurately as possible. With this design, the network allows to extract correlated spectral and spatial information from unregistered images that better preserves the spectral information. The proposed method is referred to as unregistered and unsupervised mutual Dirichlet Net (u^2-MDN). Extensive experimental results using benchmark HSI datasets demonstrate the superior performance of u^2-MDN as compared to the state-of-the-art.

  • 5 authors
·
Apr 27, 2019

Fast Registration of Photorealistic Avatars for VR Facial Animation

Virtual Reality (VR) bares promise of social interactions that can feel more immersive than other media. Key to this is the ability to accurately animate a photorealistic avatar of one's likeness while wearing a VR headset. Although high quality registration of person-specific avatars to headset-mounted camera (HMC) images is possible in an offline setting, the performance of generic realtime models are significantly degraded. Online registration is also challenging due to oblique camera views and differences in modality. In this work, we first show that the domain gap between the avatar and headset-camera images is one of the primary sources of difficulty, where a transformer-based architecture achieves high accuracy on domain-consistent data, but degrades when the domain-gap is re-introduced. Building on this finding, we develop a system design that decouples the problem into two parts: 1) an iterative refinement module that takes in-domain inputs, and 2) a generic avatar-guided image-to-image style transfer module that is conditioned on current estimation of expression and head pose. These two modules reinforce each other, as image style transfer becomes easier when close-to-ground-truth examples are shown, and better domain-gap removal helps registration. Our system produces high-quality results efficiently, obviating the need for costly offline registration to generate personalized labels. We validate the accuracy and efficiency of our approach through extensive experiments on a commodity headset, demonstrating significant improvements over direct regression methods as well as offline registration.

  • 5 authors
·
Jan 19, 2024 1

Multiview Point Cloud Registration Based on Minimum Potential Energy for Free-Form Blade Measurement

Point cloud registration is an essential step for free-form blade reconstruction in industrial measurement. Nonetheless, measuring defects of the 3D acquisition system unavoidably result in noisy and incomplete point cloud data, which renders efficient and accurate registration challenging. In this paper, we propose a novel global registration method that is based on the minimum potential energy (MPE) method to address these problems. The basic strategy is that the objective function is defined as the minimum potential energy optimization function of the physical registration system. The function distributes more weight to the majority of inlier points and less weight to the noise and outliers, which essentially reduces the influence of perturbations in the mathematical formulation. We decompose the solution into a globally optimal approximation procedure and a fine registration process with the trimmed iterative closest point algorithm to boost convergence. The approximation procedure consists of two main steps. First, according to the construction of the force traction operator, we can simply compute the position of the potential energy minimum. Second, to find the MPE point, we propose a new theory that employs two flags to observe the status of the registration procedure. We demonstrate the performance of the proposed algorithm on four types of blades. The proposed method outperforms the other global methods in terms of both accuracy and noise resistance.

  • 8 authors
·
Feb 11, 2025

DCReg: Decoupled Characterization for Efficient Degenerate LiDAR Registration

LiDAR point cloud registration is fundamental to robotic perception and navigation. However, in geometrically degenerate or narrow environments, registration problems become ill-conditioned, leading to unstable solutions and degraded accuracy. While existing approaches attempt to handle these issues, they fail to address the core challenge: accurately detection, interpret, and resolve this ill-conditioning, leading to missed detections or corrupted solutions. In this study, we introduce DCReg, a principled framework that systematically addresses the ill-conditioned registration problems through three integrated innovations. First, DCReg achieves reliable ill-conditioning detection by employing a Schur complement decomposition to the hessian matrix. This technique decouples the registration problem into clean rotational and translational subspaces, eliminating coupling effects that mask degeneracy patterns in conventional analyses. Second, within these cleanly subspaces, we develop quantitative characterization techniques that establish explicit mappings between mathematical eigenspaces and physical motion directions, providing actionable insights about which specific motions lack constraints. Finally, leveraging this clean subspace, we design a targeted mitigation strategy: a novel preconditioner that selectively stabilizes only the identified ill-conditioned directions while preserving all well-constrained information in observable space. This enables efficient and robust optimization via the Preconditioned Conjugate Gradient method with a single physical interpretable parameter. Extensive experiments demonstrate DCReg achieves at least 20% - 50% improvement in localization accuracy and 5-100 times speedup over state-of-the-art methods across diverse environments. Our implementation will be available at https://github.com/JokerJohn/DCReg.

  • 6 authors
·
Sep 7, 2025 2

Deformable MRI Sequence Registration for AI-based Prostate Cancer Diagnosis

The PI-CAI (Prostate Imaging: Cancer AI) challenge led to expert-level diagnostic algorithms for clinically significant prostate cancer detection. The algorithms receive biparametric MRI scans as input, which consist of T2-weighted and diffusion-weighted scans. These scans can be misaligned due to multiple factors in the scanning process. Image registration can alleviate this issue by predicting the deformation between the sequences. We investigate the effect of image registration on the diagnostic performance of AI-based prostate cancer diagnosis. First, the image registration algorithm, developed in MeVisLab, is analyzed using a dataset with paired lesion annotations. Second, the effect on diagnosis is evaluated by comparing case-level cancer diagnosis performance between using the original dataset, rigidly aligned diffusion-weighted scans, or deformably aligned diffusion-weighted scans. Rigid registration showed no improvement. Deformable registration demonstrated a substantial improvement in lesion overlap (+10% median Dice score) and a positive yet non-significant improvement in diagnostic performance (+0.3% AUROC, p=0.18). Our investigation shows that a substantial improvement in lesion alignment does not directly lead to a significant improvement in diagnostic performance. Qualitative analysis indicated that jointly developing image registration methods and diagnostic AI algorithms could enhance diagnostic accuracy and patient outcomes.

  • 8 authors
·
Apr 15, 2024

FreeReg: Image-to-Point Cloud Registration Leveraging Pretrained Diffusion Models and Monocular Depth Estimators

Matching cross-modality features between images and point clouds is a fundamental problem for image-to-point cloud registration. However, due to the modality difference between images and points, it is difficult to learn robust and discriminative cross-modality features by existing metric learning methods for feature matching. Instead of applying metric learning on cross-modality data, we propose to unify the modality between images and point clouds by pretrained large-scale models first, and then establish robust correspondence within the same modality. We show that the intermediate features, called diffusion features, extracted by depth-to-image diffusion models are semantically consistent between images and point clouds, which enables the building of coarse but robust cross-modality correspondences. We further extract geometric features on depth maps produced by the monocular depth estimator. By matching such geometric features, we significantly improve the accuracy of the coarse correspondences produced by diffusion features. Extensive experiments demonstrate that without any task-specific training, direct utilization of both features produces accurate image-to-point cloud registration. On three public indoor and outdoor benchmarks, the proposed method averagely achieves a 20.6 percent improvement in Inlier Ratio, a three-fold higher Inlier Number, and a 48.6 percent improvement in Registration Recall than existing state-of-the-arts.

  • 7 authors
·
Oct 5, 2023

Instant Multi-View Head Capture through Learnable Registration

Existing methods for capturing datasets of 3D heads in dense semantic correspondence are slow, and commonly address the problem in two separate steps; multi-view stereo (MVS) reconstruction followed by non-rigid registration. To simplify this process, we introduce TEMPEH (Towards Estimation of 3D Meshes from Performances of Expressive Heads) to directly infer 3D heads in dense correspondence from calibrated multi-view images. Registering datasets of 3D scans typically requires manual parameter tuning to find the right balance between accurately fitting the scans surfaces and being robust to scanning noise and outliers. Instead, we propose to jointly register a 3D head dataset while training TEMPEH. Specifically, during training we minimize a geometric loss commonly used for surface registration, effectively leveraging TEMPEH as a regularizer. Our multi-view head inference builds on a volumetric feature representation that samples and fuses features from each view using camera calibration information. To account for partial occlusions and a large capture volume that enables head movements, we use view- and surface-aware feature fusion, and a spatial transformer-based head localization module, respectively. We use raw MVS scans as supervision during training, but, once trained, TEMPEH directly predicts 3D heads in dense correspondence without requiring scans. Predicting one head takes about 0.3 seconds with a median reconstruction error of 0.26 mm, 64% lower than the current state-of-the-art. This enables the efficient capture of large datasets containing multiple people and diverse facial motions. Code, model, and data are publicly available at https://tempeh.is.tue.mpg.de.

  • 3 authors
·
Jun 12, 2023

Bridging Text and Vision: A Multi-View Text-Vision Registration Approach for Cross-Modal Place Recognition

Mobile robots necessitate advanced natural language understanding capabilities to accurately identify locations and perform tasks such as package delivery. However, traditional visual place recognition (VPR) methods rely solely on single-view visual information and cannot interpret human language descriptions. To overcome this challenge, we bridge text and vision by proposing a multiview (360{\deg} views of the surroundings) text-vision registration approach called Text4VPR for place recognition task, which is the first method that exclusively utilizes textual descriptions to match a database of images. Text4VPR employs the frozen T5 language model to extract global textual embeddings. Additionally, it utilizes the Sinkhorn algorithm with temperature coefficient to assign local tokens to their respective clusters, thereby aggregating visual descriptors from images. During the training stage, Text4VPR emphasizes the alignment between individual text-image pairs for precise textual description. In the inference stage, Text4VPR uses the Cascaded Cross-Attention Cosine Alignment (CCCA) to address the internal mismatch between text and image groups. Subsequently, Text4VPR performs precisely place match based on the descriptions of text-image groups. On Street360Loc, the first text to image VPR dataset we created, Text4VPR builds a robust baseline, achieving a leading top-1 accuracy of 57% and a leading top-10 accuracy of 92% within a 5-meter radius on the test set, which indicates that localization from textual descriptions to images is not only feasible but also holds significant potential for further advancement, as shown in Figure 1.

  • 7 authors
·
Feb 19, 2025

U-ViLAR: Uncertainty-Aware Visual Localization for Autonomous Driving via Differentiable Association and Registration

Accurate localization using visual information is a critical yet challenging task, especially in urban environments where nearby buildings and construction sites significantly degrade GNSS (Global Navigation Satellite System) signal quality. This issue underscores the importance of visual localization techniques in scenarios where GNSS signals are unreliable. This paper proposes U-ViLAR, a novel uncertainty-aware visual localization framework designed to address these challenges while enabling adaptive localization using high-definition (HD) maps or navigation maps. Specifically, our method first extracts features from the input visual data and maps them into Bird's-Eye-View (BEV) space to enhance spatial consistency with the map input. Subsequently, we introduce: a) Perceptual Uncertainty-guided Association, which mitigates errors caused by perception uncertainty, and b) Localization Uncertainty-guided Registration, which reduces errors introduced by localization uncertainty. By effectively balancing the coarse-grained large-scale localization capability of association with the fine-grained precise localization capability of registration, our approach achieves robust and accurate localization. Experimental results demonstrate that our method achieves state-of-the-art performance across multiple localization tasks. Furthermore, our model has undergone rigorous testing on large-scale autonomous driving fleets and has demonstrated stable performance in various challenging urban scenarios.

  • 14 authors
·
Jul 6, 2025

SGLC: Semantic Graph-Guided Coarse-Fine-Refine Full Loop Closing for LiDAR SLAM

Loop closing is a crucial component in SLAM that helps eliminate accumulated errors through two main steps: loop detection and loop pose correction. The first step determines whether loop closing should be performed, while the second estimates the 6-DoF pose to correct odometry drift. Current methods mostly focus on developing robust descriptors for loop closure detection, often neglecting loop pose estimation. A few methods that do include pose estimation either suffer from low accuracy or incur high computational costs. To tackle this problem, we introduce SGLC, a real-time semantic graph-guided full loop closing method, with robust loop closure detection and 6-DoF pose estimation capabilities. SGLC takes into account the distinct characteristics of foreground and background points. For foreground instances, it builds a semantic graph that not only abstracts point cloud representation for fast descriptor generation and matching but also guides the subsequent loop verification and initial pose estimation. Background points, meanwhile, are exploited to provide more geometric features for scan-wise descriptor construction and stable planar information for further pose refinement. Loop pose estimation employs a coarse-fine-refine registration scheme that considers the alignment of both instance points and background points, offering high efficiency and accuracy. Extensive experiments on multiple publicly available datasets demonstrate its superiority over state-of-the-art methods. Additionally, we integrate SGLC into a SLAM system, eliminating accumulated errors and improving overall SLAM performance. The implementation of SGLC will be released at https://github.com/nubot-nudt/SGLC.

  • 6 authors
·
Jul 10, 2024

ROMAN: Open-Set Object Map Alignment for Robust View-Invariant Global Localization

Global localization is a fundamental capability required for long-term and drift-free robot navigation. However, current methods fail to relocalize when faced with significantly different viewpoints. We present ROMAN (Robust Object Map Alignment Anywhere), a global localization method capable of localizing in challenging and diverse environments by creating and aligning maps of open-set and view-invariant objects. ROMAN formulates and solves a registration problem between object submaps using a unified graph-theoretic global data association approach with a novel incorporation of a gravity direction prior and object shape and semantic similarity. This work's open-set object mapping and information-rich object association algorithm enables global localization, even in instances when maps are created from robots traveling in opposite directions. Through a set of challenging global localization experiments in indoor, urban, and unstructured/forested environments, we demonstrate that ROMAN achieves higher relative pose estimation accuracy than other image-based pose estimation methods or segment-based registration methods. Additionally, we evaluate ROMAN as a loop closure module in large-scale multi-robot SLAM and show a 35% improvement in trajectory estimation error compared to standard SLAM systems using visual features for loop closures. Code and videos can be found at https://acl.mit.edu/roman.

More efficient manual review of automatically transcribed tabular data

Machine learning methods have proven useful in transcribing historical data. However, results from even highly accurate methods require manual verification and correction. Such manual review can be time-consuming and expensive, therefore the objective of this paper was to make it more efficient. Previously, we used machine learning to transcribe 2.3 million handwritten occupation codes from the Norwegian 1950 census with high accuracy (97%). We manually reviewed the 90,000 (3%) codes with the lowest model confidence. We allocated those 90,000 codes to human reviewers, who used our annotation tool to review the codes. To assess reviewer agreement, some codes were assigned to multiple reviewers. We then analyzed the review results to understand the relationship between accuracy improvements and effort. Additionally, we interviewed the reviewers to improve the workflow. The reviewers corrected 62.8% of the labels and agreed with the model label in 31.9% of cases. About 0.2% of the images could not be assigned a label, while for 5.1% the reviewers were uncertain, or they assigned an invalid label. 9,000 images were independently reviewed by multiple reviewers, resulting in an agreement of 86.43% and disagreement of 8.96%. We learned that our automatic transcription is biased towards the most frequent codes, with a higher degree of misclassification for the lowest frequency codes. Our interview findings show that the reviewers did internal quality control and found our custom tool well-suited. So, only one reviewer is needed, but they should report uncertainty.

  • 5 authors
·
Jun 28, 2023

Why Registration Quality Matters: Enhancing sCT Synthesis with IMPACT-Based Registration

We participated in the SynthRAD2025 challenge (Tasks 1 and 2) with a unified pipeline for synthetic CT (sCT) generation from MRI and CBCT, implemented using the KonfAI framework. Our model is a 2.5D U-Net++ with a ResNet-34 encoder, trained jointly across anatomical regions and fine-tuned per region. The loss function combined pixel-wise L1 loss with IMPACT-Synth, a perceptual loss derived from SAM and TotalSegmentator to enhance structural fidelity. Training was performed using AdamW (initial learning rate = 0.001, halved every 25k steps) on patch-based, normalized, body-masked inputs (320x320 for MRI, 256x256 for CBCT), with random flipping as the only augmentation. No post-processing was applied. Final predictions leveraged test-time augmentation and five-fold ensembling. The best model was selected based on validation MAE. Two registration strategies were evaluated: (i) Elastix with mutual information, consistent with the challenge pipeline, and (ii) IMPACT, a feature-based similarity metric leveraging pretrained segmentation networks. On the local test sets, IMPACT-based registration achieved more accurate and anatomically consistent alignments than mutual-information-based registration, resulting in improved sCT synthesis with lower MAE and more realistic anatomical structures. On the public validation set, however, models trained with Elastix-aligned data achieved higher scores, reflecting a registration bias favoring alignment strategies consistent with the evaluation pipeline. This highlights how registration errors can propagate into supervised learning, influencing both training and evaluation, and potentially inflating performance metrics at the expense of anatomical fidelity. By promoting anatomically consistent alignment, IMPACT helps mitigate this bias and supports the development of more robust and generalizable sCT synthesis models.

  • 4 authors
·
Oct 24, 2025

Automated SSIM Regression for Detection and Quantification of Motion Artefacts in Brain MR Images

Motion artefacts in magnetic resonance brain images can have a strong impact on diagnostic confidence. The assessment of MR image quality is fundamental before proceeding with the clinical diagnosis. Motion artefacts can alter the delineation of structures such as the brain, lesions or tumours and may require a repeat scan. Otherwise, an inaccurate (e.g. correct pathology but wrong severity) or incorrect diagnosis (e.g. wrong pathology) may occur. "Image quality assessment" as a fast, automated step right after scanning can assist in deciding if the acquired images are diagnostically sufficient. An automated image quality assessment based on the structural similarity index (SSIM) regression through a residual neural network is proposed in this work. Additionally, a classification into different groups - by subdividing with SSIM ranges - is evaluated. Importantly, this method predicts SSIM values of an input image in the absence of a reference ground truth image. The networks were able to detect motion artefacts, and the best performance for the regression and classification task has always been achieved with ResNet-18 with contrast augmentation. The mean and standard deviation of residuals' distribution were mu=-0.0009 and sigma=0.0139, respectively. Whilst for the classification task in 3, 5 and 10 classes, the best accuracies were 97, 95 and 89\%, respectively. The results show that the proposed method could be a tool for supporting neuro-radiologists and radiographers in evaluating image quality quickly.

  • 7 authors
·
Jun 14, 2022

Unlocking Public Catalogues: Instruction-Tuning LLMs for ICD Coding of German Tumor Diagnoses

Accurate coding of tumor diagnoses with ICD-10-GM and ICD-O-3 is essential for structured cancer documentation in Germany. Smaller open-weight LLMs are appealing for privacy-preserving automation but often struggle with coding accuracy in German-language contexts. This study investigates whether instruction-based fine-tuning on public datasets improves the coding accuracy of open-weight LLMs for German tumor diagnosis texts. The evaluation uses coded diagnoses from the local tumor documentation system as test data. In a systematic data quality assessment, the upper limit for ICD-10 coding performance was estimated at 60-79% for exact and 81-94% for partial (three-character codes only) derivation. As training data, over 500,000 question-answer pairs were created based on the ICD-10-GM, ICD-O-3, and OPS catalogues. Eight open-weight models from the Qwen, Llama, and Mistral families (7-70 B parameters) were fine-tuned. ICD-10-GM accuracy rose from 1.4-24% to 41-58%, and partial accuracy from 31-74% to 73-83%. The accuracy of ICD-O-3 topography coding also improved but started and remained considerably lower with an exact accuracy of 22-40% and a partial accuracy of 56-67% after fine-tuning. Malformed code outputs dropped to 0% for all models. Tumor-diagnosis recognition reached 99%. Accuracy correlated positively with model size, but gaps between small and large models narrowed after fine-tuning. The reasoning mode in Qwen3 generally yielded a lower performance than fine-tuning and was over 100 times slower. Our findings highlight the potential of leveraging public catalogues to build instruction datasets that improve LLMs in medical documentation tasks. The complete training dataset and the best-performing checkpoints of the fine-tuned models are available from https://huggingface.co/datasets/stefan-m-lenz/ICDOPS-QA-2024.

  • 7 authors
·
Oct 15, 2025 4

Pervasive Label Errors in Test Sets Destabilize Machine Learning Benchmarks

We identify label errors in the test sets of 10 of the most commonly-used computer vision, natural language, and audio datasets, and subsequently study the potential for these label errors to affect benchmark results. Errors in test sets are numerous and widespread: we estimate an average of at least 3.3% errors across the 10 datasets, where for example label errors comprise at least 6% of the ImageNet validation set. Putative label errors are identified using confident learning algorithms and then human-validated via crowdsourcing (51% of the algorithmically-flagged candidates are indeed erroneously labeled, on average across the datasets). Traditionally, machine learning practitioners choose which model to deploy based on test accuracy - our findings advise caution here, proposing that judging models over correctly labeled test sets may be more useful, especially for noisy real-world datasets. Surprisingly, we find that lower capacity models may be practically more useful than higher capacity models in real-world datasets with high proportions of erroneously labeled data. For example, on ImageNet with corrected labels: ResNet-18 outperforms ResNet-50 if the prevalence of originally mislabeled test examples increases by just 6%. On CIFAR-10 with corrected labels: VGG-11 outperforms VGG-19 if the prevalence of originally mislabeled test examples increases by just 5%. Test set errors across the 10 datasets can be viewed at https://labelerrors.com and all label errors can be reproduced by https://github.com/cleanlab/label-errors.

  • 3 authors
·
Mar 26, 2021

SciClaimHunt: A Large Dataset for Evidence-based Scientific Claim Verification

Verifying scientific claims presents a significantly greater challenge than verifying political or news-related claims. Unlike the relatively broad audience for political claims, the users of scientific claim verification systems can vary widely, ranging from researchers testing specific hypotheses to everyday users seeking information on a medication. Additionally, the evidence for scientific claims is often highly complex, involving technical terminology and intricate domain-specific concepts that require specialized models for accurate verification. Despite considerable interest from the research community, there is a noticeable lack of large-scale scientific claim verification datasets to benchmark and train effective models. To bridge this gap, we introduce two large-scale datasets, SciClaimHunt and SciClaimHunt_Num, derived from scientific research papers. We propose several baseline models tailored for scientific claim verification to assess the effectiveness of these datasets. Additionally, we evaluate models trained on SciClaimHunt and SciClaimHunt_Num against existing scientific claim verification datasets to gauge their quality and reliability. Furthermore, we conduct human evaluations of the claims in proposed datasets and perform error analysis to assess the effectiveness of the proposed baseline models. Our findings indicate that SciClaimHunt and SciClaimHunt_Num serve as highly reliable resources for training models in scientific claim verification.

  • 6 authors
·
Feb 14, 2025

Effective Transfer Learning for Identifying Similar Questions: Matching User Questions to COVID-19 FAQs

People increasingly search online for answers to their medical questions but the rate at which medical questions are asked online significantly exceeds the capacity of qualified people to answer them. This leaves many questions unanswered or inadequately answered. Many of these questions are not unique, and reliable identification of similar questions would enable more efficient and effective question answering schema. COVID-19 has only exacerbated this problem. Almost every government agency and healthcare organization has tried to meet the informational need of users by building online FAQs, but there is no way for people to ask their question and know if it is answered on one of these pages. While many research efforts have focused on the problem of general question similarity, these approaches do not generalize well to domains that require expert knowledge to determine semantic similarity, such as the medical domain. In this paper, we show how a double fine-tuning approach of pretraining a neural network on medical question-answer pairs followed by fine-tuning on medical question-question pairs is a particularly useful intermediate task for the ultimate goal of determining medical question similarity. While other pretraining tasks yield an accuracy below 78.7% on this task, our model achieves an accuracy of 82.6% with the same number of training examples, an accuracy of 80.0% with a much smaller training set, and an accuracy of 84.5% when the full corpus of medical question-answer data is used. We also describe a currently live system that uses the trained model to match user questions to COVID-related FAQs.

  • 5 authors
·
Aug 4, 2020

Exploring Multimodal Large Language Models for Radiology Report Error-checking

This paper proposes one of the first clinical applications of multimodal large language models (LLMs) as an assistant for radiologists to check errors in their reports. We created an evaluation dataset from two real-world radiology datasets (MIMIC-CXR and IU-Xray), with 1,000 subsampled reports each. A subset of original reports was modified to contain synthetic errors by introducing various type of mistakes. The evaluation contained two difficulty levels: SIMPLE for binary error-checking and COMPLEX for identifying error types. LLaVA (Large Language and Visual Assistant) variant models, including our instruction-tuned model, were used for the evaluation. Additionally, a domain expert evaluation was conducted on a small test set. At the SIMPLE level, the LLaVA v1.5 model outperformed other publicly available models. Instruction tuning significantly enhanced performance by 47.4% and 25.4% on MIMIC-CXR and IU-Xray data, respectively. The model also surpassed the domain experts accuracy in the MIMIC-CXR dataset by 1.67%. Notably, among the subsets (N=21) of the test set where a clinician did not achieve the correct conclusion, the LLaVA ensemble mode correctly identified 71.4% of these cases. This study marks a promising step toward utilizing multi-modal LLMs to enhance diagnostic accuracy in radiology. The ensemble model demonstrated comparable performance to clinicians, even capturing errors overlooked by humans. Nevertheless, future work is needed to improve the model ability to identify the types of inconsistency.

  • 10 authors
·
Dec 20, 2023

Modeling of learning curves with applications to pos tagging

An algorithm to estimate the evolution of learning curves on the whole of a training data base, based on the results obtained from a portion and using a functional strategy, is introduced. We approximate iteratively the sought value at the desired time, independently of the learning technique used and once a point in the process, called prediction level, has been passed. The proposal proves to be formally correct with respect to our working hypotheses and includes a reliable proximity condition. This allows the user to fix a convergence threshold with respect to the accuracy finally achievable, which extends the concept of stopping criterion and seems to be effective even in the presence of distorting observations. Our aim is to evaluate the training effort, supporting decision making in order to reduce the need for both human and computational resources during the learning process. The proposal is of interest in at least three operational procedures. The first is the anticipation of accuracy gain, with the purpose of measuring how much work is needed to achieve a certain degree of performance. The second relates the comparison of efficiency between systems at training time, with the objective of completing this task only for the one that best suits our requirements. The prediction of accuracy is also a valuable item of information for customizing systems, since we can estimate in advance the impact of settings on both the performance and the development costs. Using the generation of part-of-speech taggers as an example application, the experimental results are consistent with our expectations.

  • 3 authors
·
Feb 4, 2024

Agentic retrieval-augmented reasoning reshapes collective reliability under model variability in radiology question answering

Agentic retrieval-augmented reasoning pipelines are increasingly used to structure how large language models (LLMs) incorporate external evidence in clinical decision support. These systems iteratively retrieve curated domain knowledge and synthesize it into structured reports before answer selection. Although such pipelines can improve performance, their impact on reliability under model variability remains unclear. In real-world deployment, heterogeneous models may align, diverge, or synchronize errors in ways not captured by accuracy. We evaluated 34 LLMs on 169 expert-curated publicly available radiology questions, comparing zero-shot inference with a radiology-specific multi-step agentic retrieval condition in which all models received identical structured evidence reports derived from curated radiology knowledge. Agentic inference reduced inter-model decision dispersion (median entropy 0.48 vs. 0.13) and increased robustness of correctness across models (mean 0.74 vs. 0.81). Majority consensus also increased overall (P<0.001). Consensus strength and robust correctness remained correlated under both strategies (ho=0.88 for zero-shot; ho=0.87 for agentic), although high agreement did not guarantee correctness. Response verbosity showed no meaningful association with correctness. Among 572 incorrect outputs, 72% were associated with moderate or high clinically assessed severity, although inter-rater agreement was low (appa=0.02). Agentic retrieval therefore was associated with more concentrated decision distributions, stronger consensus, and higher cross-model robustness of correctness. These findings suggest that evaluating agentic systems through accuracy or agreement alone may not always be sufficient, and that complementary analyses of stability, cross-model robustness, and potential clinical impact are needed to characterize reliability under model variability.

  • 12 authors
·
Mar 6

MedAlign: A Clinician-Generated Dataset for Instruction Following with Electronic Medical Records

The ability of large language models (LLMs) to follow natural language instructions with human-level fluency suggests many opportunities in healthcare to reduce administrative burden and improve quality of care. However, evaluating LLMs on realistic text generation tasks for healthcare remains challenging. Existing question answering datasets for electronic health record (EHR) data fail to capture the complexity of information needs and documentation burdens experienced by clinicians. To address these challenges, we introduce MedAlign, a benchmark dataset of 983 natural language instructions for EHR data. MedAlign is curated by 15 clinicians (7 specialities), includes clinician-written reference responses for 303 instructions, and provides 276 longitudinal EHRs for grounding instruction-response pairs. We used MedAlign to evaluate 6 general domain LLMs, having clinicians rank the accuracy and quality of each LLM response. We found high error rates, ranging from 35% (GPT-4) to 68% (MPT-7B-Instruct), and an 8.3% drop in accuracy moving from 32k to 2k context lengths for GPT-4. Finally, we report correlations between clinician rankings and automated natural language generation metrics as a way to rank LLMs without human review. We make MedAlign available under a research data use agreement to enable LLM evaluations on tasks aligned with clinician needs and preferences.

  • 30 authors
·
Aug 27, 2023 4

Application of NotebookLM, a Large Language Model with Retrieval-Augmented Generation, for Lung Cancer Staging

Purpose: In radiology, large language models (LLMs), including ChatGPT, have recently gained attention, and their utility is being rapidly evaluated. However, concerns have emerged regarding their reliability in clinical applications due to limitations such as hallucinations and insufficient referencing. To address these issues, we focus on the latest technology, retrieval-augmented generation (RAG), which enables LLMs to reference reliable external knowledge (REK). Specifically, this study examines the utility and reliability of a recently released RAG-equipped LLM (RAG-LLM), NotebookLM, for staging lung cancer. Materials and methods: We summarized the current lung cancer staging guideline in Japan and provided this as REK to NotebookLM. We then tasked NotebookLM with staging 100 fictional lung cancer cases based on CT findings and evaluated its accuracy. For comparison, we performed the same task using a gold-standard LLM, GPT-4 Omni (GPT-4o), both with and without the REK. Results: NotebookLM achieved 86% diagnostic accuracy in the lung cancer staging experiment, outperforming GPT-4o, which recorded 39% accuracy with the REK and 25% without it. Moreover, NotebookLM demonstrated 95% accuracy in searching reference locations within the REK. Conclusion: NotebookLM successfully performed lung cancer staging by utilizing the REK, demonstrating superior performance compared to GPT-4o. Additionally, it provided highly accurate reference locations within the REK, allowing radiologists to efficiently evaluate the reliability of NotebookLM's responses and detect possible hallucinations. Overall, this study highlights the potential of NotebookLM, a RAG-LLM, in image diagnosis.

  • 8 authors
·
Oct 8, 2024

Give Me FP32 or Give Me Death? Challenges and Solutions for Reproducible Reasoning

Large Language Models (LLMs) are now integral across various domains and have demonstrated impressive performance. Progress, however, rests on the premise that benchmark scores are both accurate and reproducible. We demonstrate that the reproducibility of LLM performance is fragile: changing system configuration such as evaluation batch size, GPU count, and GPU version can introduce significant difference in the generated responses. This issue is especially pronounced in reasoning models, where minor rounding differences in early tokens can cascade into divergent chains of thought, ultimately affecting accuracy. For instance, under bfloat16 precision with greedy decoding, a reasoning model like DeepSeek-R1-Distill-Qwen-7B can exhibit up to 9% variation in accuracy and 9,000 tokens difference in response length due to differences in GPU count, type, and evaluation batch size. We trace the root cause of this variability to the non-associative nature of floating-point arithmetic under limited numerical precision. This work presents the first systematic investigation into how numerical precision affects reproducibility in LLM inference. Through carefully controlled experiments across various hardware, software, and precision settings, we quantify when and how model outputs diverge. Our analysis reveals that floating-point precision -- while critical for reproducibility -- is often neglected in evaluation practices. Inspired by this, we develop a lightweight inference pipeline, dubbed LayerCast, that stores weights in 16-bit precision but performs all computations in FP32, balancing memory efficiency with numerical stability. Code is available at https://github.com/nanomaoli/llm_reproducibility.

  • 10 authors
·
Jun 11, 2025 2

Non-Uniform Spatial Alignment Errors in sUAS Imagery From Wide-Area Disasters

This work presents the first quantitative study of alignment errors between small uncrewed aerial systems (sUAS) geospatial imagery and a priori building polygons and finds that alignment errors are non-uniform and irregular. The work also introduces a publicly available dataset of imagery, building polygons, and human-generated and curated adjustments that can be used to evaluate existing strategies for aligning building polygons with sUAS imagery. There are no efforts that have aligned pre-existing spatial data with sUAS imagery, and thus, there is no clear state of practice. However, this effort and analysis show that the translational alignment errors present in this type of data, averaging 82px and an intersection over the union of 0.65, which would induce further errors and biases in downstream machine learning systems unless addressed. This study identifies and analyzes the translational alignment errors of 21,619 building polygons in fifty-one orthomosaic images, covering 16787.2 Acres (26.23 square miles), constructed from sUAS raw imagery from nine wide-area disasters (Hurricane Ian, Hurricane Harvey, Hurricane Michael, Hurricane Ida, Hurricane Idalia, Hurricane Laura, the Mayfield Tornado, the Musset Bayou Fire, and the Kilauea Eruption). The analysis finds no uniformity among the angle and distance metrics of the building polygon alignments as they present an average degree variance of 0.4 and an average pixel distance variance of 0.45. This work alerts the sUAS community to the problem of spatial alignment and that a simple linear transform, often used to align satellite imagery, will not be sufficient to align spatial data in sUAS orthomosaic imagery.

  • 6 authors
·
May 10, 2024

Comparing Human and Machine Bias in Face Recognition

Much recent research has uncovered and discussed serious concerns of bias in facial analysis technologies, finding performance disparities between groups of people based on perceived gender, skin type, lighting condition, etc. These audits are immensely important and successful at measuring algorithmic bias but have two major challenges: the audits (1) use facial recognition datasets which lack quality metadata, like LFW and CelebA, and (2) do not compare their observed algorithmic bias to the biases of their human alternatives. In this paper, we release improvements to the LFW and CelebA datasets which will enable future researchers to obtain measurements of algorithmic bias that are not tainted by major flaws in the dataset (e.g. identical images appearing in both the gallery and test set). We also use these new data to develop a series of challenging facial identification and verification questions that we administered to various algorithms and a large, balanced sample of human reviewers. We find that both computer models and human survey participants perform significantly better at the verification task, generally obtain lower accuracy rates on dark-skinned or female subjects for both tasks, and obtain higher accuracy rates when their demographics match that of the question. Computer models are observed to achieve a higher level of accuracy than the survey participants on both tasks and exhibit bias to similar degrees as the human survey participants.

  • 13 authors
·
Oct 15, 2021

PRISM: Patient Records Interpretation for Semantic Clinical Trial Matching using Large Language Models

Clinical trial matching is the task of identifying trials for which patients may be potentially eligible. Typically, this task is labor-intensive and requires detailed verification of patient electronic health records (EHRs) against the stringent inclusion and exclusion criteria of clinical trials. This process is manual, time-intensive, and challenging to scale up, resulting in many patients missing out on potential therapeutic options. Recent advancements in Large Language Models (LLMs) have made automating patient-trial matching possible, as shown in multiple concurrent research studies. However, the current approaches are confined to constrained, often synthetic datasets that do not adequately mirror the complexities encountered in real-world medical data. In this study, we present the first, end-to-end large-scale empirical evaluation of clinical trial matching using real-world EHRs. Our study showcases the capability of LLMs to accurately match patients with appropriate clinical trials. We perform experiments with proprietary LLMs, including GPT-4 and GPT-3.5, as well as our custom fine-tuned model called OncoLLM and show that OncoLLM, despite its significantly smaller size, not only outperforms GPT-3.5 but also matches the performance of qualified medical doctors. All experiments were carried out on real-world EHRs that include clinical notes and available clinical trials from a single cancer center in the United States.

  • 13 authors
·
Apr 23, 2024 1

Instruct-Tuning Pretrained Causal Language Models for Ancient Greek Papyrology and Epigraphy

This article presents an experiment in fine-tuning a pretrained causal language model (Meta's Llama 3.1 8B Instruct) for aiding in three fundamental tasks of philological research: chronological and geographic attribution as well as text restoration in ancient Greek inscriptions and documentary papyri. Using a prompt-based instruct approach, the fine-tuned models surpass the state of the art in key metrics. For inscriptions, the models achieve a lower average character error rate (CER) of 22.5% (vs. 26.3%), while closely matching top-1 accuracy (60.9% vs. 61.8%) and top-20 accuracy (77.5% vs. 78.3%) for sequences up to 10 characters. They also provide a practical advantage by ignoring spaces during reconstruction, aligning better with the scriptio continua typically used in ancient written artifacts. In geographic attribution, the model outperforms previous benchmarks with a top-1 accuracy of 75.0% (vs. 70.8%) and a top-3 accuracy of 83.7% (vs. 82.1%). For dating, it achieves an average deviation of 26.2 years (vs. 29.3) and a median deviation of 1 year (vs. 3) from the actual date range. The models also set new baselines for documentary papyri, with a CER of 16.3%, a top-1 accuracy of 71.3%, and top-20 of 85.0% in text reconstruction; a top-1 accuracy of 66.4% and top-3 of 79.9% in geographic attribution; and, in chronological attribution, a deviation of 21.7 years from the actual termini post/ante quem, with a median deviation of 0 years.

  • 1 authors
·
Sep 20, 2024

G3Reg: Pyramid Graph-based Global Registration using Gaussian Ellipsoid Model

This study introduces a novel framework, G3Reg, for fast and robust global registration of LiDAR point clouds. In contrast to conventional complex keypoints and descriptors, we extract fundamental geometric primitives, including planes, clusters, and lines (PCL) from the raw point cloud to obtain low-level semantic segments. Each segment is represented as a unified Gaussian Ellipsoid Model (GEM), using a probability ellipsoid to ensure the ground truth centers are encompassed with a certain degree of probability. Utilizing these GEMs, we present a distrust-and-verify scheme based on a Pyramid Compatibility Graph for Global Registration (PAGOR). Specifically, we establish an upper bound, which can be traversed based on the confidence level for compatibility testing to construct the pyramid graph. Then, we solve multiple maximum cliques (MAC) for each level of the pyramid graph, thus generating the corresponding transformation candidates. In the verification phase, we adopt a precise and efficient metric for point cloud alignment quality, founded on geometric primitives, to identify the optimal candidate. The algorithm's performance is validated on three publicly available datasets and a self-collected multi-session dataset. Parameter settings remained unchanged during the experiment evaluations. The results exhibit superior robustness and real-time performance of the G3Reg framework compared to state-of-the-art methods. Furthermore, we demonstrate the potential for integrating individual GEM and PAGOR components into other registration frameworks to enhance their efficacy. Code: https://github.com/HKUST-Aerial-Robotics/G3Reg

  • 5 authors
·
Aug 22, 2023

HLE-Verified: A Systematic Verification and Structured Revision of Humanity's Last Exam

Humanity's Last Exam (HLE) has become a widely used benchmark for evaluating frontier large language models on challenging, multi-domain questions. However, community-led analyses have raised concerns that HLE contains a non-trivial number of noisy items, which can bias evaluation results and distort cross-model comparisons. To address this challenge, we introduce HLE-Verified, a verified and revised version of HLE with a transparent verification protocol and fine-grained error taxonomy. Our construction follows a two-stage validation-and-repair workflow resulting in a certified benchmark. In Stage I, each item undergoes binary validation of the problem and final answer through domain-expert review and model-based cross-checks, yielding 641 verified items. In Stage II, flawed but fixable items are revised under strict constraints preserving the original evaluation intent, through dual independent expert repairs, model-assisted auditing, and final adjudication, resulting in 1,170 revised-and-certified items. The remaining 689 items are released as a documented uncertain set with explicit uncertainty sources and expertise tags for future refinement. We evaluate seven state-of-the-art language models on HLE and HLE-Verified, observing an average absolute accuracy gain of 7--10 percentage points on HLE-Verified. The improvement is particularly pronounced on items where the original problem statement and/or reference answer is erroneous, with gains of 30--40 percentage points. Our analyses further reveal a strong association between model confidence and the presence of errors in the problem statement or reference answer, supporting the effectiveness of our revisions. Overall, HLE-Verified improves HLE-style evaluations by reducing annotation noise and enabling more faithful measurement of model capabilities. Data is available at: https://github.com/SKYLENAGE-AI/HLE-Verified

  • 35 authors
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Feb 14 3

TurboReg: TurboClique for Robust and Efficient Point Cloud Registration

Robust estimation is essential in correspondence-based Point Cloud Registration (PCR). Existing methods using maximal clique search in compatibility graphs achieve high recall but suffer from exponential time complexity, limiting their use in time-sensitive applications. To address this challenge, we propose a fast and robust estimator, TurboReg, built upon a novel lightweight clique, TurboClique, and a highly parallelizable Pivot-Guided Search (PGS) algorithm. First, we define the TurboClique as a 3-clique within a highly-constrained compatibility graph. The lightweight nature of the 3-clique allows for efficient parallel searching, and the highly-constrained compatibility graph ensures robust spatial consistency for stable transformation estimation. Next, PGS selects matching pairs with high SC^2 scores as pivots, effectively guiding the search toward TurboCliques with higher inlier ratios. Moreover, the PGS algorithm has linear time complexity and is significantly more efficient than the maximal clique search with exponential time complexity. Extensive experiments show that TurboReg achieves state-of-the-art performance across multiple real-world datasets, with substantial speed improvements. For example, on the 3DMatch+FCGF dataset, TurboReg (1K) operates 208.22times faster than 3DMAC while also achieving higher recall. Our code is accessible at https://github.com/Laka-3DV/TurboReg{TurboReg}.

  • 7 authors
·
Jul 2, 2025

The Curious Case of Factual (Mis)Alignment between LLMs' Short- and Long-Form Answers

Large language models (LLMs) can correctly answer "When was Einstein born?" yet fail to provide the same date when writing about Einstein's life revealing a fundamental inconsistency in how models access factual knowledge across task complexities. While models display impressive accuracy on factual question-answering benchmarks, the reliability gap between simple and complex queries remains poorly understood, eroding their trustworthiness. In this work, we introduce Short-Long Form Alignment for Factual Question Answering (SLAQ), a controlled evaluation framework that compares LLMs' answers to the same factual questions asked (a) in isolation (short) vs. (b) integrated into complex queries (long). Looking at 16 LLMs across 600 queries, we find a systematic misalignment of answers to the corresponding short and long queries. We further uncover position-dependent accuracy loss and momentum effects where consecutive correct or incorrect answers create self-reinforcing patterns. Through mechanistic analysis, we find that aligned facts activate overlapping model internals, and that metrics based on mechanistic similarity can predict short-long answer alignment with up to 78% accuracy. Our work establishes factual consistency over query complexity as an important aspect of LLMs' trustworthiness and challenges current evaluation practices, which implicitly assume that good performance for simple factual queries implies reliability in more complex knowledge-seeking tasks too.

WueNLP WüNLP
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Oct 13, 2025 2

RadioRAG: Online Retrieval-augmented Generation for Radiology Question Answering

Large language models (LLMs) often generate outdated or inaccurate information based on static training datasets. Retrieval-augmented generation (RAG) mitigates this by integrating outside data sources. While previous RAG systems used pre-assembled, fixed databases with limited flexibility, we have developed Radiology RAG (RadioRAG), an end-to-end framework that retrieves data from authoritative radiologic online sources in real-time. We evaluate the diagnostic accuracy of various LLMs when answering radiology-specific questions with and without access to additional online information via RAG. Using 80 questions from the RSNA Case Collection across radiologic subspecialties and 24 additional expert-curated questions with reference standard answers, LLMs (GPT-3.5-turbo, GPT-4, Mistral-7B, Mixtral-8x7B, and Llama3 [8B and 70B]) were prompted with and without RadioRAG in a zero-shot inference scenario RadioRAG retrieved context-specific information from Radiopaedia in real-time. Accuracy was investigated. Statistical analyses were performed using bootstrapping. The results were further compared with human performance. RadioRAG improved diagnostic accuracy across most LLMs, with relative accuracy increases ranging up to 54% for different LLMs. It matched or exceeded non-RAG models and the human radiologist in question answering across radiologic subspecialties, particularly in breast imaging and emergency radiology. However, the degree of improvement varied among models; GPT-3.5-turbo and Mixtral-8x7B-instruct-v0.1 saw notable gains, while Mistral-7B-instruct-v0.2 showed no improvement, highlighting variability in RadioRAG's effectiveness. LLMs benefit when provided access to domain-specific data beyond their training data. RadioRAG shows potential to improve LLM accuracy and factuality in radiology question answering by integrating real-time domain-specific data.

  • 10 authors
·
Jul 22, 2024

TrueGL: A Truthful, Reliable, and Unified Engine for Grounded Learning in Full-Stack Search

In the age of open and free information, a concerning trend of reliance on AI is emerging. However, existing AI tools struggle to evaluate the credibility of information and to justify their assessments. Hence, there is a growing need for systems that can help users evaluate the trustworthiness of online information. Although major search engines incorporate AI features, they often lack clear reliability indicators. We present TrueGL, a model that makes trustworthy search results more accessible. The model is a fine-tuned version of IBM's Granite-1B, trained on the custom dataset and integrated into a search engine with a reliability scoring system. We evaluate the system using prompt engineering and assigning each statement a continuous reliability score from 0.1 to 1, then instructing the model to return a textual explanation alongside the score. Each model's predicted scores are measured against real scores using standard evaluation metrics. TrueGL consistently outperforms other small-scale LLMs and rule-based approaches across all experiments on key evaluation metrics, including MAE, RMSE, and R2. The model's high accuracy, broad content coverage, and ease of use make trustworthy information more accessible and help reduce the spread of false or misleading content online. Our code is publicly available at https://github.com/AlgazinovAleksandr/TrueGL, and our model is publicly released at https://huggingface.co/JoydeepC/trueGL.

  • 6 authors
·
Jun 4, 2025

Evaluating Correctness and Faithfulness of Instruction-Following Models for Question Answering

Retriever-augmented instruction-following models are attractive alternatives to fine-tuned approaches for information-seeking tasks such as question answering (QA). By simply prepending retrieved documents in its input along with an instruction, these models can be adapted to various information domains and tasks without additional fine-tuning. While the model responses tend to be natural and fluent, the additional verbosity makes traditional QA evaluation metrics such as exact match (EM) and F1 unreliable for accurately quantifying model performance. In this work, we investigate the performance of instruction-following models across three information-seeking QA tasks. We use both automatic and human evaluation to evaluate these models along two dimensions: 1) how well they satisfy the user's information need (correctness), and 2) whether they produce a response based on the provided knowledge (faithfulness). Guided by human evaluation and analysis, we highlight the shortcomings of traditional metrics for both correctness and faithfulness. We then propose simple token-overlap based and model-based metrics that reflect the true performance of these models. Our analysis reveals that instruction-following models are competitive, and sometimes even outperform fine-tuned models for correctness. However, these models struggle to stick to the provided knowledge and often hallucinate in their responses. We hope our work encourages a more holistic evaluation of instruction-following models for QA. Our code and data is available at https://github.com/McGill-NLP/instruct-qa

  • 5 authors
·
Jul 31, 2023

Generalized Correctness Models: Learning Calibrated and Model-Agnostic Correctness Predictors from Historical Patterns

Generating accurate and calibrated confidence estimates is critical for deploying LLMs in high-stakes or user-facing applications, and remains an open challenge. Prior research has often framed confidence as a problem of eliciting a model's "self-knowledge", i.e., the ability of an LLM to judge whether its own answers are correct; this approach implicitly assumes that there is some privileged information about the answer's correctness that is accessible to the model itself. However, our experiments reveal that an LLM attempting to predict the correctness of its own outputs generally performs no better than an unrelated LLM. Moreover, we hypothesize that a key factor in building a "Correctness Model" (CM) is exposure to a target model's historical predictions. We propose multiple methods to inject this historical correctness information, creating a Generalized Correctness Model (GCM). We first show that GCMs can be trained on the correctness data from many LLMs and learn patterns for correctness prediction applicable across datasets and models. We then use CMs as a lens for studying the source of correctness prediction ability and its generalization, systematically controlling their training data and finding that answer phrasing is a strong predictor for correctness. We further explore alternative methods of injecting history without training an LLM, finding that including history as in-context examples can help improve correctness prediction, and post-hoc calibration can provide complementary reductions in calibration error. We evaluate GCMs based on Qwen3-8B across 5 model families and the MMLU and TriviaQA datasets, as well as on a downstream selective prediction task, finding that reliable LLM confidence estimation is a generalizable and model-agnostic skill learned by systematically encoding correctness history rather than a model-specific skill reliant on self-introspection.

  • 5 authors
·
Sep 29, 2025 2

BARS-CTR: Open Benchmarking for Click-Through Rate Prediction

Click-through rate (CTR) prediction is a critical task for many applications, as its accuracy has a direct impact on user experience and platform revenue. In recent years, CTR prediction has been widely studied in both academia and industry, resulting in a wide variety of CTR prediction models. Unfortunately, there is still a lack of standardized benchmarks and uniform evaluation protocols for CTR prediction research. This leads to non-reproducible or even inconsistent experimental results among existing studies, which largely limits the practical value and potential impact of their research. In this work, we aim to perform open benchmarking for CTR prediction and present a rigorous comparison of different models in a reproducible manner. To this end, we ran over 7,000 experiments for more than 12,000 GPU hours in total to re-evaluate 24 existing models on multiple datasets and settings. Surprisingly, our experiments show that with sufficient hyper-parameter search and model tuning, many deep models have smaller differences than expected. The results also reveal that making real progress on the modeling of CTR prediction is indeed a very challenging research task. We believe that our benchmarking work could not only allow researchers to gauge the effectiveness of new models conveniently but also make them fairly compare with the state of the arts. We have publicly released the benchmarking code, evaluation protocols, and hyper-parameter settings of our work to promote reproducible research in this field.

  • 5 authors
·
Sep 12, 2020

Reshaping Free-Text Radiology Notes Into Structured Reports With Generative Transformers

BACKGROUND: Radiology reports are typically written in a free-text format, making clinical information difficult to extract and use. Recently the adoption of structured reporting (SR) has been recommended by various medical societies thanks to the advantages it offers, e.g. standardization, completeness and information retrieval. We propose a pipeline to extract information from free-text radiology reports, that fits with the items of the reference SR registry proposed by a national society of interventional and medical radiology, focusing on CT staging of patients with lymphoma. METHODS: Our work aims to leverage the potential of Natural Language Processing (NLP) and Transformer-based models to deal with automatic SR registry filling. With the availability of 174 radiology reports, we investigate a rule-free generative Question Answering approach based on a domain-specific version of T5 (IT5). Two strategies (batch-truncation and ex-post combination) are implemented to comply with the model's context length limitations. Performance is evaluated in terms of strict accuracy, F1, and format accuracy, and compared with the widely used GPT-3.5 Large Language Model. A 5-point Likert scale questionnaire is used to collect human-expert feedback on the similarity between medical annotations and generated answers. RESULTS: The combination of fine-tuning and batch splitting allows IT5 to achieve notable results; it performs on par with GPT-3.5 albeit its size being a thousand times smaller in terms of parameters. Human-based assessment scores show a high correlation (Spearman's correlation coefficients>0.88, p-values<0.001) with AI performance metrics (F1) and confirm the superior ability of LLMs (i.e., GPT-3.5, 175B of parameters) in generating plausible human-like statements.

  • 8 authors
·
Mar 27, 2024

Evaluating language models as risk scores

Current question-answering benchmarks predominantly focus on accuracy in realizable prediction tasks. Conditioned on a question and answer-key, does the most likely token match the ground truth? Such benchmarks necessarily fail to evaluate LLMs' ability to quantify ground-truth outcome uncertainty. In this work, we focus on the use of LLMs as risk scores for unrealizable prediction tasks. We introduce folktexts, a software package to systematically generate risk scores using LLMs, and evaluate them against US Census data products. A flexible API enables the use of different prompting schemes, local or web-hosted models, and diverse census columns that can be used to compose custom prediction tasks. We evaluate 17 recent LLMs across five proposed benchmark tasks. We find that zero-shot risk scores produced by multiple-choice question-answering have high predictive signal but are widely miscalibrated. Base models consistently overestimate outcome uncertainty, while instruction-tuned models underestimate uncertainty and produce over-confident risk scores. In fact, instruction-tuning polarizes answer distribution regardless of true underlying data uncertainty. This reveals a general inability of instruction-tuned LLMs to express data uncertainty using multiple-choice answers. A separate experiment using verbalized chat-style risk queries yields substantially improved calibration across instruction-tuned models. These differences in ability to quantify data uncertainty cannot be revealed in realizable settings, and highlight a blind-spot in the current evaluation ecosystem that folktexts covers.

  • 3 authors
·
Jul 19, 2024

CliniQ: A Multi-faceted Benchmark for Electronic Health Record Retrieval with Semantic Match Assessment

Electronic Health Record (EHR) retrieval plays a pivotal role in various clinical tasks, but its development has been severely impeded by the lack of publicly available benchmarks. In this paper, we introduce a novel public EHR retrieval benchmark, CliniQ, to address this gap. We consider two retrieval settings: Single-Patient Retrieval and Multi-Patient Retrieval, reflecting various real-world scenarios. Single-Patient Retrieval focuses on finding relevant parts within a patient note, while Multi-Patient Retrieval involves retrieving EHRs from multiple patients. We build our benchmark upon 1,000 discharge summary notes along with the ICD codes and prescription labels from MIMIC-III, and collect 1,246 unique queries with 77,206 relevance judgments by further leveraging powerful LLMs as annotators. Additionally, we include a novel assessment of the semantic gap issue in EHR retrieval by categorizing matching types into string match and four types of semantic matches. On our proposed benchmark, we conduct a comprehensive evaluation of various retrieval methods, ranging from conventional exact match to popular dense retrievers. Our experiments find that BM25 sets a strong baseline and performs competitively to the dense retrievers, and general domain dense retrievers surprisingly outperform those designed for the medical domain. In-depth analyses on various matching types reveal the strengths and drawbacks of different methods, enlightening the potential for targeted improvement. We believe that our benchmark will stimulate the research communities to advance EHR retrieval systems.

  • 8 authors
·
Feb 10, 2025

Trustworthy LLMs: a Survey and Guideline for Evaluating Large Language Models' Alignment

Ensuring alignment, which refers to making models behave in accordance with human intentions [1,2], has become a critical task before deploying large language models (LLMs) in real-world applications. For instance, OpenAI devoted six months to iteratively aligning GPT-4 before its release [3]. However, a major challenge faced by practitioners is the lack of clear guidance on evaluating whether LLM outputs align with social norms, values, and regulations. This obstacle hinders systematic iteration and deployment of LLMs. To address this issue, this paper presents a comprehensive survey of key dimensions that are crucial to consider when assessing LLM trustworthiness. The survey covers seven major categories of LLM trustworthiness: reliability, safety, fairness, resistance to misuse, explainability and reasoning, adherence to social norms, and robustness. Each major category is further divided into several sub-categories, resulting in a total of 29 sub-categories. Additionally, a subset of 8 sub-categories is selected for further investigation, where corresponding measurement studies are designed and conducted on several widely-used LLMs. The measurement results indicate that, in general, more aligned models tend to perform better in terms of overall trustworthiness. However, the effectiveness of alignment varies across the different trustworthiness categories considered. This highlights the importance of conducting more fine-grained analyses, testing, and making continuous improvements on LLM alignment. By shedding light on these key dimensions of LLM trustworthiness, this paper aims to provide valuable insights and guidance to practitioners in the field. Understanding and addressing these concerns will be crucial in achieving reliable and ethically sound deployment of LLMs in various applications.

  • 8 authors
·
Aug 10, 2023 2

Cross-modal feature fusion for robust point cloud registration with ambiguous geometry

Point cloud registration has seen significant advancements with the application of deep learning techniques. However, existing approaches often overlook the potential of integrating radiometric information from RGB images. This limitation reduces their effectiveness in aligning point clouds pairs, especially in regions where geometric data alone is insufficient. When used effectively, radiometric information can enhance the registration process by providing context that is missing from purely geometric data. In this paper, we propose CoFF, a novel Cross-modal Feature Fusion method that utilizes both point cloud geometry and RGB images for pairwise point cloud registration. Assuming that the co-registration between point clouds and RGB images is available, CoFF explicitly addresses the challenges where geometric information alone is unclear, such as in regions with symmetric similarity or planar structures, through a two-stage fusion of 3D point cloud features and 2D image features. It incorporates a cross-modal feature fusion module that assigns pixel-wise image features to 3D input point clouds to enhance learned 3D point features, and integrates patch-wise image features with superpoint features to improve the quality of coarse matching. This is followed by a coarse-to-fine matching module that accurately establishes correspondences using the fused features. We extensively evaluate CoFF on four common datasets: 3DMatch, 3DLoMatch, IndoorLRS, and the recently released ScanNet++ datasets. In addition, we assess CoFF on specific subset datasets containing geometrically ambiguous cases. Our experimental results demonstrate that CoFF achieves state-of-the-art registration performance across all benchmarks, including remarkable registration recalls of 95.9% and 81.6% on the widely-used 3DMatch and 3DLoMatch datasets, respectively...(Truncated to fit arXiv abstract length)

  • 6 authors
·
May 19, 2025

Compression Favors Consistency, Not Truth: When and Why Language Models Prefer Correct Information

Why do language models sometimes prefer correct statements even when trained on mixed-quality data? We introduce the Compression--Consistency Principle: next-token prediction favors hypotheses that allow shorter and more internally consistent descriptions of the training data. Truth bias emerges only when false alternatives are structurally harder to compress. We test this using small GPT-2-style character-level transformers (3.5M--86M parameters) on synthetic math corpora with controlled mixtures of correct and incorrect rules. In the random-error setting, models strongly prefer correct completions in paired evaluation: 83.1% accuracy at balanced data and 67.0% even when correct rules appear in only 10% of the corpus. Replacing random errors with a coherent but mathematically incorrect rule system largely eliminates the preference (near-chance accuracy). In a more natural-language-like synthetic world, the effect is weaker but still present (57.7%). Additional experiments show that embedding verification steps can restore preference for correctness even at small scale, while increasing the number of consistent rules produces a graded improvement in accuracy. Our results suggest that what appears as a "truth bias" is largely a side effect of compression pressure and preference for internal consistency, rather than an intrinsic drive toward truth. Full code and data are available at https://github.com/Rai220/compression-drives-truth.

  • 1 authors
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Mar 12 2

Enhancing Worldwide Image Geolocation by Ensembling Satellite-Based Ground-Level Attribute Predictors

Geolocating images of a ground-level scene entails estimating the location on Earth where the picture was taken, in absence of GPS or other location metadata. Typically, methods are evaluated by measuring the Great Circle Distance (GCD) between a predicted location and ground truth. However, this measurement is limited because it only evaluates a single point, not estimates of regions or score heatmaps. This is especially important in applications to rural, wilderness and under-sampled areas, where finding the exact location may not be possible, and when used in aggregate systems that progressively narrow down locations. In this paper, we introduce a novel metric, Recall vs Area (RvA), which measures the accuracy of estimated distributions of locations. RvA treats image geolocation results similarly to document retrieval, measuring recall as a function of area: For a ranked list of (possibly non-contiguous) predicted regions, we measure the accumulated area required for the region to contain the ground truth coordinate. This produces a curve similar to a precision-recall curve, where "precision" is replaced by square kilometers area, allowing evaluation of performance for different downstream search area budgets. Following directly from this view of the problem, we then examine a simple ensembling approach to global-scale image geolocation, which incorporates information from multiple sources to help address domain shift, and can readily incorporate multiple models, attribute predictors, and data sources. We study its effectiveness by combining the geolocation models GeoEstimation and the current SOTA GeoCLIP, with attribute predictors based on ORNL LandScan and ESA-CCI Land Cover. We find significant improvements in image geolocation for areas that are under-represented in the training set, particularly non-urban areas, on both Im2GPS3k and Street View images.

  • 3 authors
·
Jul 18, 2024

Verifying the Verifiers: Unveiling Pitfalls and Potentials in Fact Verifiers

Fact verification is essential for ensuring the reliability of LLM applications. In this study, we evaluate 12 pre-trained LLMs and one specialized fact-verifier, including frontier LLMs and open-weight reasoning LLMs, using a collection of examples from 14 fact-checking benchmarks. We share three findings intended to guide future development of more robust fact verifiers. First, we highlight the importance of addressing annotation errors and ambiguity in datasets, demonstrating that approximately 16\% of ambiguous or incorrectly labeled data substantially influences model rankings. Neglecting this issue may result in misleading conclusions during comparative evaluations, and we suggest using a systematic pipeline utilizing LLM-as-a-judge to help identify these issues at scale. Second, we discover that frontier LLMs with few-shot in-context examples, often overlooked in previous works, achieve top-tier performance. We therefore recommend future studies include comparisons with these simple yet highly effective baselines. Lastly, despite their effectiveness, frontier LLMs incur substantial costs, motivating the development of small, fine-tuned fact verifiers. We show that these small models still have room for improvement, particularly on instances that require complex reasoning. Encouragingly, we demonstrate that augmenting training with synthetic multi-hop reasoning data significantly enhances their capabilities in such instances. We release our code, model, and dataset at https://github.com/just1nseo/verifying-the-verifiers

  • 9 authors
·
Jun 16, 2025

A Quantitative Evaluation of Dense 3D Reconstruction of Sinus Anatomy from Monocular Endoscopic Video

Generating accurate 3D reconstructions from endoscopic video is a promising avenue for longitudinal radiation-free analysis of sinus anatomy and surgical outcomes. Several methods for monocular reconstruction have been proposed, yielding visually pleasant 3D anatomical structures by retrieving relative camera poses with structure-from-motion-type algorithms and fusion of monocular depth estimates. However, due to the complex properties of the underlying algorithms and endoscopic scenes, the reconstruction pipeline may perform poorly or fail unexpectedly. Further, acquiring medical data conveys additional challenges, presenting difficulties in quantitatively benchmarking these models, understanding failure cases, and identifying critical components that contribute to their precision. In this work, we perform a quantitative analysis of a self-supervised approach for sinus reconstruction using endoscopic sequences paired with optical tracking and high-resolution computed tomography acquired from nine ex-vivo specimens. Our results show that the generated reconstructions are in high agreement with the anatomy, yielding an average point-to-mesh error of 0.91 mm between reconstructions and CT segmentations. However, in a point-to-point matching scenario, relevant for endoscope tracking and navigation, we found average target registration errors of 6.58 mm. We identified that pose and depth estimation inaccuracies contribute equally to this error and that locally consistent sequences with shorter trajectories generate more accurate reconstructions. These results suggest that achieving global consistency between relative camera poses and estimated depths with the anatomy is essential. In doing so, we can ensure proper synergy between all components of the pipeline for improved reconstructions that will facilitate clinical application of this innovative technology.

  • 12 authors
·
Oct 22, 2023

Transformation Decoupling Strategy based on Screw Theory for Deterministic Point Cloud Registration with Gravity Prior

Point cloud registration is challenging in the presence of heavy outlier correspondences. This paper focuses on addressing the robust correspondence-based registration problem with gravity prior that often arises in practice. The gravity directions are typically obtained by inertial measurement units (IMUs) and can reduce the degree of freedom (DOF) of rotation from 3 to 1. We propose a novel transformation decoupling strategy by leveraging screw theory. This strategy decomposes the original 4-DOF problem into three sub-problems with 1-DOF, 2-DOF, and 1-DOF, respectively, thereby enhancing the computation efficiency. Specifically, the first 1-DOF represents the translation along the rotation axis and we propose an interval stabbing-based method to solve it. The second 2-DOF represents the pole which is an auxiliary variable in screw theory and we utilize a branch-and-bound method to solve it. The last 1-DOF represents the rotation angle and we propose a global voting method for its estimation. The proposed method sequentially solves three consensus maximization sub-problems, leading to efficient and deterministic registration. In particular, it can even handle the correspondence-free registration problem due to its significant robustness. Extensive experiments on both synthetic and real-world datasets demonstrate that our method is more efficient and robust than state-of-the-art methods, even when dealing with outlier rates exceeding 99%.

  • 7 authors
·
Nov 2, 2023