{"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/cellpose-a-morphological-analysis-tool-for","title":"Cellpose+, a morphological analysis tool for feature extraction of stained cell images","arxiv_id":"2410.18738","date":"2024-10-24","proceeding":null,"authors":["Israel A. Huaman","Fares D. E. Ghorabe","Sofya S. Chumakova","Alexandra A. Pisarenko","Alexey E. Dudaev","Tatiana G. Volova","Galina A. Ryltseva","Sviatlana A. Ulasevich","Ekaterina I. Shishatskaya","Ekaterina V. Skorb","Pavel S. Zun"],"abstract":"Advanced image segmentation and processing tools present an opportunity to study cell processes and their dynamics. However, image analysis is often routine and time-consuming. Nowadays, alternative data-driven approaches using deep learning are potentially offering automatized, accurate, and fast image analysis. In this paper, we extend the applications of Cellpose, a state-of-the-art cell segmentation framework, with feature extraction capabilities to assess morphological characteristics. We also introduce a dataset of DAPI and FITC stained cells to which our new method is applied.","url_abs":"https://arxiv.org/abs/2410.18738v1","url_pdf":"https://arxiv.org/pdf/2410.18738v1.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":"cellpose-a-morphological-analysis-tool-for","repo_url":"https://github.com/itmo-mmrm-lab/cellpose","is_official":1,"mentioned_in_paper":1,"mentioned_in_github":1,"framework":"pytorch","reach":null}],"tasks":[{"task_slug":"cell-segmentation","task_name":"Cell Segmentation"},{"task_slug":"image-segmentation","task_name":"Image Segmentation"},{"task_slug":"morphological-analysis","task_name":"Morphological Analysis"},{"task_slug":"segmentation","task_name":"Segmentation"},{"task_slug":"semantic-segmentation","task_name":"Semantic Segmentation"}],"methods":[],"datasets_introduced":[],"methods_introduced":[],"results":[],"syntology":{"atlas_url":null,"mcp":null,"developers":"https://syntology.ai/developers"},"arxiv_metadata":null,"syntology_extracted_results":null}