{"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/joint-deformable-registration-of-large-em","title":"Joint Deformable Registration of Large EM Image Volumes: A Matrix Solver Approach","arxiv_id":"1804.10019","date":"2018-04-26","proceeding":null,"authors":["Khaled Khairy","Gennady Denisov","Stephan Saalfeld"],"abstract":"Large electron microscopy image datasets for connectomics are typically\ncomposed of thousands to millions of partially overlapping two-dimensional\nimages (tiles), which must be registered into a coherent volume prior to\nfurther analysis. A common registration strategy is to find matching features\nbetween neighboring and overlapping image pairs, followed by a numerical\nestimation of optimal image deformation using a so-called solver program.\n  Existing solvers are inadequate for large data volumes, and inefficient for\nsmall-scale image registration.\n  In this work, an efficient and accurate matrix-based solver method is\npresented. A linear system is constructed that combines minimization of\nfeature-pair square distances with explicit constraints in a regularization\nterm. In absence of reliable priors for regularization, we show how to\nconstruct a rigid-model approximation to use as prior. The linear system is\nsolved using available computer programs, whose performance on typical\nregistration tasks we briefly compare, and to which future scale-up is\ndelegated. Our method is applied to the joint alignment of 2.67 million images,\nwith more than 200 million point-pairs and has been used for successfully\naligning the first full adult fruit fly brain.","url_abs":"http://arxiv.org/abs/1804.10019v1","url_pdf":"http://arxiv.org/pdf/1804.10019v1.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":"joint-deformable-registration-of-large-em","repo_url":"https://github.com/khaledkhairy/EM_aligner","is_official":1,"mentioned_in_paper":1,"mentioned_in_github":1,"framework":"none","reach":null}],"tasks":[{"task_slug":"image-registration","task_name":"Image Registration"}],"methods":[],"datasets_introduced":[],"methods_introduced":[],"results":[],"syntology":{"syntology_url":null,"atlas_url":null,"mcp":null,"developers":"https://syntology.ai/developers"},"arxiv_metadata":null,"syntology_extracted_results":null}