{"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/using-deep-learning-for-segmentation-and","title":"Using Deep Learning for Segmentation and Counting within Microscopy Data","arxiv_id":"1802.10548","date":"2018-02-28","proceeding":null,"authors":["Carlos X. Hernández","Mohammad M. Sultan","Vijay S. Pande"],"abstract":"Cell counting is a ubiquitous, yet tedious task that would greatly benefit\nfrom automation. From basic biological questions to clinical trials, cell\ncounts provide key quantitative feedback that drive research. Unfortunately,\ncell counting is most commonly a manual task and can be time-intensive. The\ntask is made even more difficult due to overlapping cells, existence of\nmultiple focal planes, and poor imaging quality, among other factors. Here, we\ndescribe a convolutional neural network approach, using a recently described\nfeature pyramid network combined with a VGG-style neural network, for\nsegmenting and subsequent counting of cells in a given microscopy image.","url_abs":"http://arxiv.org/abs/1802.10548v1","url_pdf":"http://arxiv.org/pdf/1802.10548v1.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":"using-deep-learning-for-segmentation-and","repo_url":"https://github.com/cxhernandez/cellcount","is_official":1,"mentioned_in_paper":1,"mentioned_in_github":0,"framework":"pytorch","reach":null}],"tasks":[{"task_slug":"deep-learning","task_name":"Deep 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}