5 papers
Supporting Workflow Reproducibility by Linking Bioinformatics Tools across Papers and Executable Code
Clémence Sebe, Olivier Ferret, Aurélie Névéol +3
Motivation: The rapid growth of biological data has intensified the need for transparent, reproducible, and well-documented computational workflows. The ability to clearly connect…
Extracting Information in a Low-resource Setting: Case Study on Bioinformatics Workflows
Clémence Sebe, Sarah Cohen-Boulakia, Olivier Ferret +1
Bioinformatics workflows are essential for complex biological data analyses and are often described in scientific articles with source code in public repositories. Extracting detai…
From LIMA to DeepLIMA: following a new path of interoperability
Victor Bocharov, Romaric Besançon, Gaël de Chalendar +2
In this article, we describe the architecture of the LIMA (Libre Multilingual Analyzer) framework and its recent evolution with the addition of new text analysis modules based on d…
Cross-modal Retrieval for Knowledge-based Visual Question Answering
Paul Lerner, Olivier Ferret, Camille Guinaudeau
Knowledge-based Visual Question Answering about Named Entities is a challenging task that requires retrieving information from a multimodal Knowledge Base. Named entities have dive…
Probing Pretrained Language Models with Hierarchy Properties
Jesús Lovón-Melgarejo, Jose G. Moreno, Romaric Besançon +2
Since Pretrained Language Models (PLMs) are the cornerstone of the most recent Information Retrieval (IR) models, the way they encode semantic knowledge is particularly important.…