Performance Estimation for Supervised Medical Image Segmentation Models on Unlabeled Data Using UniverSeg

The performance of medical image segmentation models is usually evaluated using metrics like the Dice score and Hausdorff distance, which compare predicted masks to ground truth annotations. However, when applying the model to unseen data, such as in clinical settings, it is often impractical to annotate all the data, making the model's performance uncertain. To address this challenge, we propose the Segmentation Performance Evaluator (SPE), a framework for estimating segmentation models' performance on unlabeled data. This framework is adaptable to various evaluation metrics and model architectures. Experiments on six publicly available datasets across six evaluation metrics including pixel-based metrics such as Dice score and distance-based metrics like HD95, demonstrated the versatility and effectiveness of our approach, achieving a high correlation (0.956$\pm$0.046) and low MAE (0.025$\pm$0.019) compare with real Dice score on the independent test set. These results highlight its ability to reliably estimate model performance without requiring annotations. The SPE framework integrates seamlessly into any model training process without adding training overhead, enabling performance estimation and facilitating the real-world application of medical image segmentation algorithms. The source code is publicly available

ChronoRoot 2.0: An Open AI-Powered Platform for 2D Temporal Plant Phenotyping

The analysis of plant developmental plasticity, including root system architecture, is fundamental to understanding plant adaptability and development, particularly in the context of climate change and agricultural sustainability. While significant advances have been made in plant phenotyping technologies, comprehensive temporal analysis of root development remains challenging, with most existing solutions providing either limited throughput or restricted structural analysis capabilities. Here, we present ChronoRoot 2.0, an integrated open-source platform that combines affordable hardware with advanced artificial intelligence to enable sophisticated temporal plant phenotyping. The system introduces several major advances, offering an integral perspective of seedling development: (i) simultaneous multi-organ tracking of six distinct plant structures, (ii) quality control through real-time validation, (iii) comprehensive architectural measurements including novel gravitropic response parameters, and (iv) dual specialized user interfaces for both architectural analysis and high-throughput screening. We demonstrate the system's capabilities through three use cases for Arabidopsis thaliana: characterization of circadian growth patterns under different light conditions, detailed analysis of gravitropic responses in transgenic plants, and high-throughput screening of etiolation responses across multiple genotypes. ChronoRoot 2.0 maintains its predecessor's advantages of low cost and modularity while significantly expanding its capabilities, making sophisticated temporal phenotyping more accessible to the broader plant science community. The system's open-source nature, combined with extensive documentation and containerized deployment options, ensures reproducibility and enables community-driven development of new analytical capabilities.

Kaleidoscope: In-language Exams for Massively Multilingual Vision Evaluation

The evaluation of vision-language models (VLMs) has mainly relied on English-language benchmarks, leaving significant gaps in both multilingual and multicultural coverage. While multilingual benchmarks have expanded, both in size and languages, many rely on translations of English datasets, failing to capture cultural nuances. In this work, we propose Kaleidoscope, as the most comprehensive exam benchmark to date for the multilingual evaluation of vision-language models. Kaleidoscope is a large-scale, in-language multimodal benchmark designed to evaluate VLMs across diverse languages and visual inputs. Kaleidoscope covers 18 languages and 14 different subjects, amounting to a total of 20,911 multiple-choice questions. Built through an open science collaboration with a diverse group of researchers worldwide, Kaleidoscope ensures linguistic and cultural authenticity. We evaluate top-performing multilingual vision-language models and find that they perform poorly on low-resource languages and in complex multimodal scenarios. Our results highlight the need for progress on culturally inclusive multimodal evaluation frameworks.

In-Context Reverse Classification Accuracy: Efficient Estimation of Segmentation Quality without Ground-Truth

Assessing the quality of automatic image segmentation is crucial in clinical practice, but often very challenging due to the limited availability of ground truth annotations. In this paper, we introduce In-Context Reverse Classification Accuracy (In-Context RCA), a novel framework for automatically estimating segmentation quality in the absence of ground-truth annotations. By leveraging recent in-context learning segmentation models and incorporating retrieval-augmentation techniques to select the most relevant reference images, our approach enables efficient quality estimation with minimal reference data. Validated across diverse medical imaging modalities, our method demonstrates robust performance and computational efficiency, offering a promising solution for automated quality control in clinical workflows, where fast and reliable segmentation assessment is essential. The code is available at https://github.com/mcosarinsky/In-Context-RCA.

Fairness of Deep Ensembles: On the interplay between per-group task difficulty and under-representation

Ensembling is commonly regarded as an effective way to improve the general performance of models in machine learning, while also increasing the robustness of predictions. When it comes to algorithmic fairness, heterogeneous ensembles, composed of multiple model types, have been employed to mitigate biases in terms of demographic attributes such as sex, age or ethnicity. Moreover, recent work has shown how in multi-class problems even simple homogeneous ensembles may favor performance of the worst-performing target classes. While homogeneous ensembles are simpler to implement in practice, it is not yet clear whether their benefits translate to groups defined not in terms of their target class, but in terms of demographic or protected attributes, hence improving fairness. In this work we show how this simple and straightforward method is indeed able to mitigate disparities, particularly benefiting under-performing subgroups. Interestingly, this can be achieved without sacrificing overall performance, which is a common trade-off observed in bias mitigation strategies. Moreover, we analyzed the interplay between two factors which may result in biases: sub-group under-representation and the inherent difficulty of the task for each group. These results revealed that, contrary to popular assumptions, having balanced datasets may be suboptimal if the task difficulty varies between subgroups. Indeed, we found that a perfectly balanced dataset may hurt both the overall performance and the gap between groups. This highlights the importance of considering the interaction between multiple forces at play in fairness.

In the Picture: Medical Imaging Datasets, Artifacts, and their Living Review

Datasets play a critical role in medical imaging research, yet issues such as label quality, shortcuts, and metadata are often overlooked. This lack of attention may harm the generalizability of algorithms and, consequently, negatively impact patient outcomes. While existing medical imaging literature reviews mostly focus on machine learning (ML) methods, with only a few focusing on datasets for specific applications, these reviews remain static -- they are published once and not updated thereafter. This fails to account for emerging evidence, such as biases, shortcuts, and additional annotations that other researchers may contribute after the dataset is published. We refer to these newly discovered findings of datasets as research artifacts. To address this gap, we propose a living review that continuously tracks public datasets and their associated research artifacts across multiple medical imaging applications. Our approach includes a framework for the living review to monitor data documentation artifacts, and an SQL database to visualize the citation relationships between research artifact and dataset. Lastly, we discuss key considerations for creating medical imaging datasets, review best practices for data annotation, discuss the significance of shortcuts and demographic diversity, and emphasize the importance of managing datasets throughout their entire lifecycle. Our demo is publicly available at http://130.226.140.142.

On dataset transferability in medical image classification

Current transferability estimation methods designed for natural image datasets are often suboptimal in medical image classification. These methods primarily focus on estimating the suitability of pre-trained source model features for a target dataset, which can lead to unrealistic predictions, such as suggesting that the target dataset is the best source for itself. To address this, we propose a novel transferability metric that combines feature quality with gradients to evaluate both the suitability and adaptability of source model features for target tasks. We evaluate our approach in two new scenarios: source dataset transferability for medical image classification and cross-domain transferability. Our results show that our method outperforms existing transferability metrics in both settings. We also provide insight into the factors influencing transfer performance in medical image classification, as well as the dynamics of cross-domain transfer from natural to medical images. Additionally, we provide ground-truth transfer performance benchmarking results to encourage further research into transferability estimation for medical image classification. Our code and experiments are available at https://github.com/DovileDo/transferability-in-medical-imaging.

Global MMLU: Understanding and Addressing Cultural and Linguistic Biases in Multilingual Evaluation

Cultural biases in multilingual datasets pose significant challenges for their effectiveness as global benchmarks. These biases stem not only from language but also from the cultural knowledge required to interpret questions, reducing the practical utility of translated datasets like MMLU. Furthermore, translation often introduces artifacts that can distort the meaning or clarity of questions in the target language. A common practice in multilingual evaluation is to rely on machine-translated evaluation sets, but simply translating a dataset is insufficient to address these challenges. In this work, we trace the impact of both of these issues on multilingual evaluations and ensuing model performances. Our large-scale evaluation of state-of-the-art open and proprietary models illustrates that progress on MMLU depends heavily on learning Western-centric concepts, with 28% of all questions requiring culturally sensitive knowledge. Moreover, for questions requiring geographic knowledge, an astounding 84.9% focus on either North American or European regions. Rankings of model evaluations change depending on whether they are evaluated on the full portion or the subset of questions annotated as culturally sensitive, showing the distortion to model rankings when blindly relying on translated MMLU. We release Global-MMLU, an improved MMLU with evaluation coverage across 42 languages -- with improved overall quality by engaging with compensated professional and community annotators to verify translation quality while also rigorously evaluating cultural biases present in the original dataset. This comprehensive Global-MMLU set also includes designated subsets labeled as culturally sensitive and culturally agnostic to allow for more holistic, complete evaluation.

SignAttention: On the Interpretability of Transformer Models for Sign Language Translation

This paper presents the first comprehensive interpretability analysis of a Transformer-based Sign Language Translation (SLT) model, focusing on the translation from video-based Greek Sign Language to glosses and text. Leveraging the Greek Sign Language Dataset, we examine the attention mechanisms within the model to understand how it processes and aligns visual input with sequential glosses. Our analysis reveals that the model pays attention to clusters of frames rather than individual ones, with a diagonal alignment pattern emerging between poses and glosses, which becomes less distinct as the number of glosses increases. We also explore the relative contributions of cross-attention and self-attention at each decoding step, finding that the model initially relies on video frames but shifts its focus to previously predicted tokens as the translation progresses. This work contributes to a deeper understanding of SLT models, paving the way for the development of more transparent and reliable translation systems essential for real-world applications.

Fitting Skeletal Models via Graph-based Learning

Skeletonization is a popular shape analysis technique that models an object's interior as opposed to just its boundary. Fitting template-based skeletal models is a time-consuming process requiring much manual parameter tuning. Recently, machine learning-based methods have shown promise for generating s-reps from object boundaries. In this work, we propose a new skeletonization method which leverages graph convolutional networks to produce skeletal representations (s-reps) from dense segmentation masks. The method is evaluated on both synthetic data and real hippocampus segmentations, achieving promising results and fast inference.