{"id":15697448,"url":"https://github.com/casperdcl/brain_phantom","last_synced_at":"2026-03-10T00:33:15.603Z","repository":{"id":92567177,"uuid":"87346709","full_name":"casperdcl/brain_phantom","owner":"casperdcl","description":"3D continuous brain phantom","archived":false,"fork":false,"pushed_at":"2017-11-13T16:33:45.000Z","size":7438,"stargazers_count":7,"open_issues_count":0,"forks_count":0,"subscribers_count":1,"default_branch":"master","last_synced_at":"2025-09-09T22:41:39.331Z","etag":null,"topics":["brain","medical-imaging","phantom","vtk"],"latest_commit_sha":null,"homepage":"http://www.jhu.edu/rahmim/","language":"C++","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/casperdcl.png","metadata":{"files":{"readme":"README.rst","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}},"created_at":"2017-04-05T19:07:33.000Z","updated_at":"2025-07-21T08:56:03.000Z","dependencies_parsed_at":null,"dependency_job_id":"88c4a473-c116-43c2-a87d-fb9a181a436c","html_url":"https://github.com/casperdcl/brain_phantom","commit_stats":null,"previous_names":[],"tags_count":3,"template":false,"template_full_name":null,"purl":"pkg:github/casperdcl/brain_phantom","repository_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/casperdcl%2Fbrain_phantom","tags_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/casperdcl%2Fbrain_phantom/tags","releases_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/casperdcl%2Fbrain_phantom/releases","manifests_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/casperdcl%2Fbrain_phantom/manifests","owner_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/owners/casperdcl","download_url":"https://codeload.github.com/casperdcl/brain_phantom/tar.gz/refs/heads/master","sbom_url":"https://repos.ecosyste.ms/api/v1/hosts/GitHub/repositories/casperdcl%2Fbrain_phantom/sbom","scorecard":null,"host":{"name":"GitHub","url":"https://github.com","kind":"github","repositories_count":286080680,"owners_count":30318464,"icon_url":"https://github.com/github.png","version":null,"created_at":"2022-05-30T11:31:42.601Z","updated_at":"2026-03-09T20:05:46.299Z","status":"ssl_error","status_checked_at":"2026-03-09T19:57:04.425Z","response_time":61,"last_error":"SSL_connect returned=1 errno=0 peeraddr=140.82.121.6:443 state=error: unexpected eof while reading","robots_txt_status":"success","robots_txt_updated_at":"2025-07-24T06:49:26.215Z","robots_txt_url":"https://github.com/robots.txt","online":false,"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":["brain","medical-imaging","phantom","vtk"],"created_at":"2024-10-03T19:19:55.596Z","updated_at":"2026-03-10T00:33:15.586Z","avatar_url":"https://github.com/casperdcl.png","language":"C++","funding_links":[],"categories":[],"sub_categories":[],"readme":"The NURBS-based HUman Brain (NHUB) Phantom\n==========================================\n\n|DOI| |brain_phantom-hits|\n\nBased on a segmented MRI dataset of a normal subject (100 structures)\nincluding the ability to simulate rigid motion of the brain\n(3 translation, 3 rotation).\n\n|NHUB|\n\nUsage\n-----\n\n(Re)compile using ``make``, or use ``CMake`` (e.g. for ``Visual Studio``).\nThen run ``dncat_bin`` (without arguments) for help:\n\n.. code:: sh\n\n    $ make\n    $ ./dncat_bin\n    Program to produce voxelised phantoms from NURBS torso file input\n\n    Usage:\n      ./dncat_bin [options] \u003cgen_par\u003e \u003cout_base\u003e\n\n    Options:\n      -x X  translation in mm\n      -y Y  translation in mm\n      -z Z  translation in mm\n      -X X  rotation in degrees\n      -Y Y  rotation in degrees\n      -Z Z  rotation in degrees\n\n    Arguments:\n      \u003cgen_par\u003e   : general parameter filename. Note that start_slice should be\n                    an even number \u003e 1 to avoid artefacts.\n      \u003cout_base\u003e  : base string for output files\n\nExamples\n~~~~~~~~\n\n.. code:: sh\n\n    ./dncat_bin test.par resulting_image1\n\nwill create a ``128x128x128`` sample brain image (see\n`test.par \u003chttps://github.com/casperdcl/brain_phantom/blob/master/test.par\u003e`__\nfor definitions). The values we have used in this particular example are\nsomewhat close to a typical anatomic MR study (but this may need to be\nbetter tuned and double-checked for the various regions).\n\nReferences\n----------\n\n|DOI|\n\n- Paul Segars 2006-09-03\n- Casper da Costa-Luis (`casperdcl \u003chttps://github.com/casperdcl\u003e`__) 2017-05\n\nOriginal can be downloaded from `here \u003chttp://www.jhu.edu/rahmim/\u003e`__.\n\nPlease reference the following work (in which the construction of the\nphantom has been more elaborately mentioned):\n\nA. Rahmim, K. Dinelle, J. C. Cheng, M. A. Shilov, W. P. Segars, S. C. Lidstone, S. Blinder, O. G. Rousset, H. Vajihollahi, B. M. W. Tsui, D. F. Wong, and V. Sossi, \"Accurate event-driven motion compensation in high-resolution PET incorporating scattered and random events\", IEEE Trans. Med. Imag., vol. 27, pp. 1018-1033, 2008.\n\n.. |DOI| image:: https://zenodo.org/badge/87346709.svg\n   :target: https://zenodo.org/badge/latestdoi/87346709\n.. |NHUB| image:: https://rahmimlab.files.wordpress.com/2013/05/brain_phantom.jpg\n.. |brain_phantom-hits| image:: https://caspersci.uk.to/cgi-bin/hits.cgi?q=brain_phantom\n   :target: https://caspersci.uk.to/cgi-bin/hits.cgi?q=brain_phantom\u0026a=update\u0026r=https://github.com/casperdcl/brain_phantom\n","project_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fcasperdcl%2Fbrain_phantom","html_url":"https://awesome.ecosyste.ms/projects/github.com%2Fcasperdcl%2Fbrain_phantom","lists_url":"https://awesome.ecosyste.ms/api/v1/projects/github.com%2Fcasperdcl%2Fbrain_phantom/lists"}