{"about":{"site":"https://codewithpapers.app","non_affiliation":"Code with Papers and Syntology are not affiliated with, endorsed by, or sponsored by Papers with Code, Meta, or the pwc-archive mirror.","licence":"CC BY-SA 4.0","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","attribution":"https://codewithpapers.app/attribution","modified":"archive material modified by Syntology; see the attribution page"},"url":"/paper/rnaglib-a-python-package-for-rna-2-5d-graphs","title":"RNAglib: A Python Package for RNA 2.5D Graphs","arxiv_id":"2109.04434","date":"2021-09-09","proceeding":null,"authors":["Vincent Mallet","Carlos Oliver","Jonathan Broadbent","William L. Hamilton","Jérôme Waldispühl"],"abstract":"RNA 3D architectures are stabilized by sophisticated networks of (non-canonical) base pair interactions, which can be conveniently encoded as multi-relational graphs and efficiently exploited by graph theoretical approaches and recent progresses in machine learning techniques. RNAglib is a library that eases the use of this representation, by providing clean data, methods to load it in machine learning pipelines and graph-based deep learning models suited for this representation. RNAglib also offers other utilities to model RNA with 2.5D graphs, such as drawing tools, comparison functions or baseline performances on RNA applications. The method and data is distributed as a fully documented pip package. Availability: https://rnaglib.cs.mcgill.ca","url_abs":"https://arxiv.org/abs/2109.04434v1","url_pdf":"https://arxiv.org/pdf/2109.04434v1.pdf","source":{"archive":"pwc-archive (Hugging Face), CC BY-SA 4.0","snapshot":"2025-07-28","licence_url":"https://creativecommons.org/licenses/by-sa/4.0/legalcode","row_kind":"abstracts"},"code_links":[{"paper_slug":"rnaglib-a-python-package-for-rna-2-5d-graphs","repo_url":"https://jwgitlab.cs.mcgill.ca/cgoliver/rnaglib","is_official":1,"mentioned_in_paper":0,"mentioned_in_github":0,"framework":"pytorch","reach":null}],"tasks":[{"task_slug":"machine-learning","task_name":"BIG-bench Machine Learning"}],"methods":[],"datasets_introduced":[],"methods_introduced":[],"results":[],"syntology":{"atlas_url":null,"mcp":null,"developers":"https://syntology.ai/developers"},"arxiv_metadata":null,"syntology_extracted_results":null}