arXiv subjects

Fajwel Fogel

Publications and source records attributed to Fajwel Fogel.

8 recordsLinked to original sources

arXiv2026

Where Does the Signal Live? A Web Data Recipe for Medical Encoder Pretraining

Web data curation has been widely studied for decoder Large Language Model (LLM) pretraining. Encoders for dense-terminology domains such as medicine, by contrast, are pretrained on small, manually-curated corpora that limit scalability and writing style diversity, a bottleneck even more severe in non-English clinical settings. Whether web-scale data curation also benefits encoder Masked Language Modeling (MLM) in a dense-terminology domain remains an open question. To address this, we introduce two complementary levers. Medical-term density filtering selects documents rich in medical terms. Signal-amplifying rephrasing uses an LLM to rewrite documents into denser variants with broader entity contexts. We instantiate the recipe on French medical NLP. The medical-term density filter outperforms the widely-used educational quality filter on downstream medical tasks, and the two complement each other. Signal-amplifying rephrasing alone improves on raw web data, and mixing it with filtered web data produces the largest gain. The recipe yields FineMed, a French medical pretraining corpus, and DoctoBERT, a state-of-the-art French medical encoder family evaluated on both the public benchmark DrBenchmark and a proprietary clinical Named Entity Recognition (NER) task.

cs.CL↗

arXiv2025

SERA-H: Super-Resolution of Sentinel Time Series for Fine-Scale Canopy Height Mapping

High-resolution mapping of canopy height is essential for forest management and biodiversity monitoring. Although recent studies have led to the advent of deep learning methods using satellite imagery to predict height maps, these approaches often face a trade-off between data accessibility and spatial resolution. To overcome these limitations, we present SERA-H, an end-to-end model combining a super-resolution module (EDSR) and temporal attention encoding (UTAE). Trained under the supervision of high-density LiDAR-derived Canopy Height Models (CHM), our model generates 2.5 m resolution height maps from freely available Sentinel-1 and Sentinel-2 (10 m) time series data. Evaluated against an open-source benchmark dataset in France, SERA-H, with a MAE of 2.6 m and R2 of 0.82, not only outperforms standard Sentinel-1/2 baselines but also approaches the accuracy of methods based on commercial very high-resolution imagery (e.g., SPOT-6/7), while relying solely on freely available data. These results demonstrate that combining high-resolution ALS supervision with the spatio-temporal information embedded in Sentinel time series enables the reconstruction of spatial detail finer than the native resolution of the input imagery. By approaching the accuracy of costly commercial imagery, SERA-H opens the possibility of mapping temperate forests using publicly available data with high revisit frequency.

cs.CV↗

arXiv2025

FORMSpoT: Revealing Fine-Scale Forest Disturbances from Nation-Wide 1.5 m Forest Canopy Height Time Series

Current large-scale satellite-based forest disturbance monitoring systems operate at 10-30~m resolution, too coarse to detect changes at the scale of individual trees and resulting in a systematic underestimation of forest disturbances. Here, we introduce FORMSpoT (Forest Mapping with SPOT Time series), a decade-long (2014-2024), country-scale mapping of forest canopy height at 1.5 m resolution over France, together with FORMSpoT-$\Delta$, annual disturbance polygons derived from height differences in the FORMSpoT time series. Canopy heights were derived from annual SPOT-6/7 composites using a hierarchical transformer model (PVTv2) trained on high-resolution airborne laser scanning (ALS) data. To enable robust change detection, we developed a post-processing pipeline combining co-registration and spatio-temporal total variation denoising. We find that (1) the French disturbance regime is dominated by small events. Sub-100 m$^{2}$ disturbances alone represent 72% of all events, and disturbances below 0.1 ha account for 97% of events and 39% of the disturbed area. These events are largely missed by Sentinel-1/2 and Landsat-based products. (2) Validated against successive ALS revisits across 19 sites and 5,087 NFI plot revisits, FORMSpoT-$\Delta$ provides reliable detection (F1>0.8) above 100 m$^{2}$ while retaining sensitivity to finer events that coarser products do not capture. (3) At the national scale, FORMSpoT-$\Delta$ resolves contrasted disturbance regimes, from clear-cut-dominated dynamics in maritime pine plantations to diffuse, smaller disturbance events in mountain forests, and captures their temporal dynamics, including the salvage-logging signature of the 2017-2022 bark beetle crisis in northeastern France

cs.CV↗

arXiv2024

Open-Canopy: Towards Very High Resolution Forest Monitoring

Estimating canopy height and its changes at meter resolution from satellite imagery is a significant challenge in computer vision with critical environmental applications. However, the lack of open-access datasets at this resolution hinders the reproducibility and evaluation of models. We introduce Open-Canopy, the first open-access, country-scale benchmark for very high-resolution (1.5 m) canopy height estimation, covering over 87,000 km$^2$ across France with 1.5 m resolution satellite imagery and aerial LiDAR data. Additionally, we present Open-Canopy-$Δ$, a benchmark for canopy height change detection between images from different years at tree level-a challenging task for current computer vision models. We evaluate state-of-the-art architectures on these benchmarks, highlighting significant challenges and opportunities for improvement. Our datasets and code are publicly available at https://github.com/fajwel/Open-Canopy.

cs.CV↗

arXiv2016

Learning with Clustering Structure

We study supervised learning problems using clustering constraints to impose structure on either features or samples, seeking to help both prediction and interpretation. The problem of clustering features arises naturally in text classification for instance, to reduce dimensionality by grouping words together and identify synonyms. The sample clustering problem on the other hand, applies to multiclass problems where we are allowed to make multiple predictions and the performance of the best answer is recorded. We derive a unified optimization formulation highlighting the common structure of these problems and produce algorithms whose core iteration complexity amounts to a k-means clustering step, which can be approximated efficiently. We extend these results to combine sparsity and clustering constraints, and develop a new projection algorithm on the set of clustered sparse vectors. We prove convergence of our algorithms on random instances, based on a union of subspaces interpretation of the clustering structure. Finally, we test the robustness of our methods on artificial data sets as well as real data extracted from movie reviews.

cs.LG↗

arXiv2016

Spectral Ranking using Seriation

We describe a seriation algorithm for ranking a set of items given pairwise comparisons between these items. Intuitively, the algorithm assigns similar rankings to items that compare similarly with all others. It does so by constructing a similarity matrix from pairwise comparisons, using seriation methods to reorder this matrix and construct a ranking. We first show that this spectral seriation algorithm recovers the true ranking when all pairwise comparisons are observed and consistent with a total order. We then show that ranking reconstruction is still exact when some pairwise comparisons are corrupted or missing, and that seriation based spectral ranking is more robust to noise than classical scoring methods. Finally, we bound the ranking error when only a random subset of the comparions are observed. An additional benefit of the seriation formulation is that it allows us to solve semi-supervised ranking problems. Experiments on both synthetic and real datasets demonstrate that seriation based spectral ranking achieves competitive and in some cases superior performance compared to classical ranking methods.

cs.LG↗

arXiv2015

Convex Relaxations for Permutation Problems

Seriation seeks to reconstruct a linear order between variables using unsorted, pairwise similarity information. It has direct applications in archeology and shotgun gene sequencing for example. We write seriation as an optimization problem by proving the equivalence between the seriation and combinatorial 2-SUM problems on similarity matrices (2-SUM is a quadratic minimization problem over permutations). The seriation problem can be solved exactly by a spectral algorithm in the noiseless case and we derive several convex relaxations for 2-SUM to improve the robustness of seriation solutions in noisy settings. These convex relaxations also allow us to impose structural constraints on the solution, hence solve semi-supervised seriation problems. We derive new approximation bounds for some of these relaxations and present numerical experiments on archeological data, Markov chains and DNA assembly from shotgun gene sequencing data.

math.OC↗

arXiv2014

Phase retrieval for imaging problems

We study convex relaxation algorithms for phase retrieval on imaging problems. We show that structural assumptions on the signal and the observations, such as sparsity, smoothness or positivity, can be exploited to both speed-up convergence and improve recovery performance. We detail experimental results in molecular imaging problems simulated from PDB data.

math.OC↗