{"version":1,"kind":"Article","sha256":"","slug":"43","location":"","dependencies":[],"doi":"10.54294/f4pczq","frontmatter":{"title":"Open Topology: A Toolkit for Brain Isosurface Correction","abstract":"Isosurface extraction from brain images often creates handles between brain folds that are anatomically separated. Although manual editing could optimally correct these anatomical errors, it is not realistic due the size of the 3D data and the convoluted geometry of the brain. We propose an algorithm to automatically repair the isosurface and we make our code available at http://www.OpenTopology.org","license":"You are licensing your work to Kitware Inc. under the\nCreative Commons Attribution License Version 3.0.\n\nKitware Inc. agrees to the following:\n\nKitware is free\n * to copy, distribute, display, and perform the work\n * to make derivative works\n * to make commercial use of the work\n\nUnder the following conditions:\n\\\"by Attribution\\\" - Kitware must attribute the work in the manner specified by the author or licensor.\n\n * For any reuse or distribution, they must make clear to others the license terms of this work.\n * Any of these conditions can be waived if they get permission from the copyright holder.\n\nYour fair use and other rights are in no way affected by the above.\n\nThis is a human-readable summary of the Legal Code (the full license) available at\nhttp://creativecommons.org/licenses/by/3.0/legalcode","keywords":["topology correction","digital topology","triangle mesh","Marching Cubes","brain cortex","handles","isosurface"],"authors":[{"name":"Jaume, Sylvain","email":"sylvainjaume@gmail.com","affiliations":["MIT CSAIL"],"corresponding":true},{"name":"Rondao, Patrice","affiliations":[]},{"name":"Macq, Benoit","affiliations":[]}],"date_submitted":"2005-08-06T04:38:08Z","external_publication_id":43,"revision_cids":["bafkreiaqnl3bpl6pnfhrn7hukkvsjz46k3dkenwpwchvbbkjcqx74mvsuu"]},"mdast":{"type":"root"},"downloads":[{"url":"https://pub.desci.com/ipfs/bafkreiaqi2gzys3qz2qyc4iy33njgtsw2fdmou7zjcxztok6gtea67gcwy","title":"root/code/Sylvain-Jaume-MICCAI2005/CMakeLists.txt","filename":"CMakeLists.txt","extra":{"size_bytes":248,"type":"file"}},{"url":"https://pub.desci.com/ipfs/bafkreih2fkvfrmxaxcuawf7qmnitiigoc2ir6ivyhxxtbj6uz55z33ydwi","title":"root/code/Sylvain-Jaume-MICCAI2005/viewPolyData/CMakeLists.txt","filename":"CMakeLists.txt","extra":{"size_bytes":492,"type":"file"}},{"url":"https://pub.desci.com/ipfs/bafkreifarjf3xcmsu7ts6k3qnbnhj7veysqnghasolhb3ahqjz6wp5mk7i","title":"root/code/Sylvain-Jaume-MICCAI2005/viewPolyData/viewPolyData.cxx","filename":"viewPolyData.cxx","extra":{"size_bytes":5299,"type":"file"}},{"url":"https://pub.desci.com/ipfs/bafkreihfr3t4qxca6da7bv63d7o7wey3i44c2oxya44csax4gd5mdvu5vi","title":"root/code/Sylvain-Jaume-MICCAI2005/trianglesToQuads/CMakeLists.txt","filename":"CMakeLists.txt","extra":{"size_bytes":544,"type":"file"}},{"url":"https://pub.desci.com/ipfs/bafkreigymk2oghtwjclwtxx56chyurbmjrntg3sgnpqk4fgm2cofogffpa","title":"root/code/Sylvain-Jaume-MICCAI2005/trianglesToQuads/trianglesToQuads.cxx","filename":"trianglesToQuads.cxx","extra":{"size_bytes":4219,"type":"file"}},{"url":"https://pub.desci.com/ipfs/bafkreigprckfrnd7zkivljt5we6sfufbreniguzmoggauwjovm6z6msnnu","title":"root/code/Sylvain-Jaume-MICCAI2005/trianglesToQuads/vtkTrianglesToQuads.cxx","filename":"vtkTrianglesToQuads.cxx","extra":{"size_bytes":12727,"type":"file"}},{"url":"https://pub.desci.com/ipfs/bafkreiemjcd4h7slj7yce6xjdnuejeps4pm2eqionly7gxwndor4jrfvci","title":"root/code/Sylvain-Jaume-MICCAI2005/trianglesToQuads/vtkTrianglesToQuads.h","filename":"vtkTrianglesToQuads.h","extra":{"size_bytes":2491,"type":"file"}},{"url":"https://pub.desci.com/ipfs/bafkreignlbuon2n7q5yoja5ou7eaafc5edb4jw5bik4rwmrib7rueo7qfm","title":"root/code/Sylvain-Jaume-MICCAI2005/triangleFilter/CMakeLists.txt","filename":"CMakeLists.txt","extra":{"size_bytes":509,"type":"file"}},{"url":"https://pub.desci.com/ipfs/bafkreih2kl2cfhlby4gogpzcj5qpfzgosnaqzllmxuleyoaucma2glnlvu","title":"root/code/Sylvain-Jaume-MICCAI2005/triangleFilter/triangleFilter.cxx","filename":"triangleFilter.cxx","extra":{"size_bytes":4456,"type":"file"}},{"url":"https://pub.desci.com/ipfs/bafkreie4kkqrvypddpoetkeauymzlqebmfantrexhdytb7yhsedeqstimq","title":"root/code/Sylvain-Jaume-MICCAI2005/torusSource/CMakeLists.txt","filename":"CMakeLists.txt","extra":{"size_bytes":498,"type":"file"}},{"url":"https://pub.desci.com/ipfs/bafkreib4qwls5qrvhoeifteiptpa7zogqx5p25pgtiyfqxqhcpmqkdqvkm","title":"root/code/Sylvain-Jaume-MICCAI2005/torusSource/torusSource.cxx","filename":"torusSource.cxx","extra":{"size_bytes":5544,"type":"file"}},{"url":"https://pub.desci.com/ipfs/bafkreibbds2cqqlmaxbhj7ttrdck2l6tm7mcawhhkkmbobg6kkanccnrzi","title":"root/code/Sylvain-Jaume-MICCAI2005/sphereSource/CMakeLists.txt","filename":"CMakeLists.txt","extra":{"size_bytes":502,"type":"file"}},{"url":"https://pub.desci.com/ipfs/bafkreiakgifzrfyazix4lpsucr6ka5ztkr2jqopr2iiz7a5euxtrcdgcsy","title":"root/code/Sylvain-Jaume-MICCAI2005/sphereSource/sphereSource.cxx","filename":"sphereSource.cxx","extra":{"size_bytes":2536,"type":"file"}},{"url":"https://pub.desci.com/ipfs/bafkreidf6qtz33rlq2srstzcllah7ww7qeimqmswewgemrgzdfokaxqg2q","title":"root/code/Sylvain-Jaume-MICCAI2005/smoothPolyData/CMakeLists.txt","filename":"CMakeLists.txt","extra":{"size_bytes":504,"type":"file"}},{"url":"https://pub.desci.com/ipfs/bafkreicpau2tojis6dqw25xwsr4wkva3hjjuaqdl2w6fnus7fokdgp2sie","title":"root/code/Sylvain-Jaume-MICCAI2005/smoothPolyData/smoothPolyData.cxx","filename":"smoothPolyData.cxx","extra":{"size_bytes":4582,"type":"file"}},{"url":"https://pub.desci.com/ipfs/bafkreieltscthhuod7w42ot4cp6ivexwnvvlkmsdddynq6hja3qyofvlpu","title":"root/code/Sylvain-Jaume-MICCAI2005/shrinkPolyData/CMakeLists.txt","filename":"CMakeLists.txt","extra":{"size_bytes":509,"type":"file"}},{"url":"https://pub.desci.com/ipfs/bafkreiecut4hsgrfhcgizefxfkstknay4nyyun52vuxcthyutndgo65k2e","title":"root/code/Sylvain-Jaume-MICCAI2005/shrinkPolyData/shrinkPolyData.cxx","filename":"shrinkPolyData.cxx","extra":{"size_bytes":4875,"type":"file"}},{"url":"https://pub.desci.com/ipfs/bafkreia3gbecwcowy3wnuwnsjqpujrfmqy3kc5wl2wvmnyipwoowo5ycj4","title":"root/code/Sylvain-Jaume-MICCAI2005/repairHoles/CMakeLists.txt","filename":"CMakeLists.txt","extra":{"size_bytes":207,"type":"file"}},{"url":"https://pub.desci.com/ipfs/bafkreifdtm634qonl3zdeerbex57yrv24i3e7t6eh7e4uyfi2qj7rjtcxe","title":"root/code/Sylvain-Jaume-MICCAI2005/repairHoles/repairHolesTest.cxx","filename":"repairHolesTest.cxx","extra":{"size_bytes":3517,"type":"file"}},{"url":"https://pub.desci.com/ipfs/bafkreidfcznvvmnn7mmrq2sg3z5jnr25ush2xumam37bwavqtxg4snq2va","title":"root/code/Sylvain-Jaume-MICCA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