{"id":27961890,"url":"https://github.com/vanvalenlab/deepcelltypes-2024_wang_et_al","last_synced_at":"2025-09-07T01:35:19.746Z","repository":{"id":269628595,"uuid":"874496954","full_name":"vanvalenlab/DeepCellTypes-2024_Wang_et_al","owner":"vanvalenlab","description":null,"archived":false,"fork":false,"pushed_at":"2025-06-30T05:08:24.000Z","size":2199,"stargazers_count":0,"open_issues_count":2,"forks_count":0,"subscribers_count":2,"default_branch":"master","last_synced_at":"2025-08-16T09:57:15.604Z","etag":null,"topics":[],"latest_commit_sha":null,"homepage":null,"language":"Jupyter Notebook","has_issues":true,"has_wiki":null,"has_pages":null,"mirror_url":null,"source_name":null,"license":null,"status":null,"scm":"git","pull_requests_enabled":true,"icon_url":"https://github.com/vanvalenlab.png","metadata":{"files":{"readme":"README.md","changelog":null,"contributing":null,"funding":null,"license":null,"code_of_conduct":null,"threat_model":null,"audit":null,"citation":null,"codeowners":null,"security":null,"support":null,"governance":null,"roadmap":null,"authors":null,"dei":null,"publiccode":null,"codemeta":null,"zenodo":null}},"created_at":"2024-10-17T23:58:34.000Z","updated_at":"2024-11-25T18:58:42.000Z","dependencies_parsed_at":null,"dependency_job_id":"7603d826-1568-42a5-aa7b-d82c776834a5","html_url":"https://github.com/vanvalenlab/DeepCellTypes-2024_Wang_et_al","commit_stats":null,"previous_names":["vanvalenlab/deepcelltypes-2024_wang_et_al"],"tags_count":0,"template":false,"template_full_name":null,"purl":"pkg:github/vanvalenlab/DeepCellTypes-2024_Wang_et_al","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/vanvalenlab%2FDeepCellTypes-2024_Wang_et_al","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/vanvalenlab%2FDeepCellTypes-2024_Wang_et_al/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/vanvalenlab%2FDeepCellTypes-2024_Wang_et_al/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/vanvalenlab%2FDeepCellTypes-2024_Wang_et_al/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/vanvalenlab","download_url":"https://codeload.github.com/vanvalenlab/DeepCellTypes-2024_Wang_et_al/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/vanvalenlab%2FDeepCellTypes-2024_Wang_et_al/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":273986614,"owners_count":25202704,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2022-07-04T15:15:14.044Z","status":"online","status_checked_at":"2025-09-06T02:00:13.247Z","response_time":2576,"last_error":null,"robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":true,"can_crawl_api":true,"host_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub","repositories_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories","repository_names_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repository_names","owners_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners"}},"keywords":[],"created_at":"2025-05-07T19:12:54.062Z","updated_at":"2025-09-07T01:35:19.733Z","avatar_url":"https://github.com/vanvalenlab.png","language":"Jupyter Notebook","funding_links":[],"categories":[],"sub_categories":[],"readme":"# DeepCell Types Publication Figure\n\nThis repo contains notebooks to reproduce the figures from Wang et al. (2024). \n\nThe result figures only contain a subset of ExpandedTissueNet that includes all data sourced from public datasets. It is available at https://vanvalenlab.github.io/deepcell-types/. The remaining datasets were made available to our lab before their publication. These are available upon reasonable request and will be made publicly available upon publication of the corresponding manuscripts.\n\n## Citation\n```\n@article{deepcelltypes,\n  title={Generalized cell phenotyping for spatial proteomics with language-informed vision models},\n  author={Wang, Xuefei and Dilip, Rohit and Bussi, Yuval and Brown, Caitlin and Pradhan, Elora and Jain, Yashvardhan and Yu, Kevin and Li, Shenyi and Abt, Martin and Borner, Katy and others},\n  journal={bioRxiv},\n  pages={2024--11},\n  year={2024},\n  publisher={Cold Spring Harbor Laboratory}\n}\n```\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fvanvalenlab%2Fdeepcelltypes-2024_wang_et_al","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fvanvalenlab%2Fdeepcelltypes-2024_wang_et_al","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fvanvalenlab%2Fdeepcelltypes-2024_wang_et_al/lists"}