{"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/seeded-iterative-clustering-for-histology","title":"Seeded iterative clustering for histology region identification","arxiv_id":"2211.07425","date":"2022-11-14","proceeding":null,"authors":["Eduard Chelebian","Francesco Ciompi","Carolina Wählby"],"abstract":"Annotations are necessary to develop computer vision algorithms for histopathology, but dense annotations at a high resolution are often time-consuming to make. Deep learning models for segmentation are a way to alleviate the process, but require large amounts of training data, training times and computing power. To address these issues, we present seeded iterative clustering to produce a coarse segmentation densely and at the whole slide level. The algorithm uses precomputed representations as the clustering space and a limited amount of sparse interactive annotations as seeds to iteratively classify image patches. We obtain a fast and effective way of generating dense annotations for whole slide images and a framework that allows the comparison of neural network latent representations in the context of transfer learning.","url_abs":"https://arxiv.org/abs/2211.07425v1","url_pdf":"https://arxiv.org/pdf/2211.07425v1.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":"seeded-iterative-clustering-for-histology","repo_url":"https://github.com/eduardchelebian/histology-umap","is_official":1,"mentioned_in_paper":1,"mentioned_in_github":0,"framework":"pytorch","reach":null}],"tasks":[{"task_slug":"clustering","task_name":"Clustering"},{"task_slug":"segmentation","task_name":"Segmentation"},{"task_slug":"transfer-learning","task_name":"Transfer Learning"},{"task_slug":"whole-slide-images","task_name":"whole slide images"}],"methods":[],"datasets_introduced":[],"methods_introduced":[],"results":[],"syntology":{"syntology_url":null,"atlas_url":null,"mcp":null,"developers":"https://syntology.ai/developers"},"arxiv_metadata":null,"syntology_extracted_results":null}