{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,7,30]],"date-time":"2025-07-30T11:42:46Z","timestamp":1753875766604,"version":"3.41.2"},"reference-count":9,"publisher":"Oxford University Press (OUP)","issue":"1","license":[{"start":{"date-parts":[[2025,1,15]],"date-time":"2025-01-15T00:00:00Z","timestamp":1736899200000},"content-version":"vor","delay-in-days":20,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"DOI":"10.13039\/100000002","name":"National Institutes of Health","doi-asserted-by":"publisher","award":["R35GM142953"],"award-info":[{"award-number":["R35GM142953"]}],"id":[{"id":"10.13039\/100000002","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2024,12,26]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:sec>\n                  <jats:title>Summary<\/jats:title>\n                  <jats:p>Time-lapse 3D imaging is fundamental for studying biological processes but requires software able to handle terabytes of voxel data. Although many multidimensional viewing applications exist, they mostly lack support for heterogeneous voxel counts, datatypes, and modalities in a single timeline. Open Chrono-Morph Viewer provides a straightforward graphical user interface to quickly investigate multi-timescale datasets represented as separate volume files in the common NRRD format for compatibility between toolchains. It features dynamic clipping surfaces for rapid investigation of 3D morphology and a scriptable animation API for quantitative, repeatable, publication-quality visualization. It is implemented in pure Python using common libraries to facilitate community-driven development.<\/jats:p>\n               <\/jats:sec>\n               <jats:sec>\n                  <jats:title>Availability and implementation<\/jats:title>\n                  <jats:p>OCMV is available at https:\/\/github.com\/ShangWangLab\/OpenChronoMorphViewer for Windows, Linux, and macOS. Supporting tutorials, documentation, and installation instructions can be found in the supplementary information. Our modified Fiji I\/O plugin for up to 5D NRRD file conversion is available at https:\/\/github.com\/afaubert\/IO.<\/jats:p>\n               <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btae761","type":"journal-article","created":{"date-parts":[[2025,1,16]],"date-time":"2025-01-16T00:10:31Z","timestamp":1736986231000},"source":"Crossref","is-referenced-by-count":2,"title":["Open Chrono-Morph Viewer: visualize big bioimage time series containing heterogeneous volumes"],"prefix":"10.1093","volume":"41","author":[{"given":"Andre C","family":"Faubert","sequence":"first","affiliation":[{"name":"Department of Biomedical Engineering, Stevens Institute of Technology , Hoboken, NJ 07030,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9447-719X","authenticated-orcid":false,"given":"Shang","family":"Wang","sequence":"additional","affiliation":[{"name":"Department of Biomedical Engineering, Stevens Institute of Technology , Hoboken, NJ 07030,","place":["United States"]}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"286","published-online":{"date-parts":[[2025,1,15]]},"reference":[{"key":"2025012209311197900_btae761-B1","doi-asserted-by":"crossref","first-page":"690","DOI":"10.1038\/nmeth.2075","article-title":"ICY: an open bioimage informatics platform for extended reproducible research","volume":"9","author":"de Chaumont","year":"2012","journal-title":"Nat Methods"},{"key":"2025012209311197900_btae761-B2","doi-asserted-by":"crossref","first-page":"697","DOI":"10.1038\/nmeth.2084","article-title":"Biological imaging software tools","volume":"9","author":"Eliceiri","year":"2012","journal-title":"Nat Methods"},{"key":"2025012209311197900_btae761-B3","doi-asserted-by":"crossref","first-page":"2472","DOI":"10.1002\/1873-3468.14451","article-title":"A Hitchhiker's guide through the bio-image analysis software universe","volume":"596","author":"Haase","year":"2022","journal-title":"FEBS Lett"},{"key":"2025012209311197900_btae761-B4","doi-asserted-by":"crossref","first-page":"5","DOI":"10.1016\/j.devcel.2011.06.030","article-title":"Bridging structure and process in developmental biology through new imaging technologies","volume":"21","author":"Lippincott-Schwartz","year":"2011","journal-title":"Dev Cell"},{"key":"2025012209311197900_btae761-B5","doi-asserted-by":"crossref","first-page":"193","DOI":"10.1038\/nprot.2014.011","article-title":"Extensible visualization and analysis for multidimensional images using Vaa3D","volume":"9","author":"Peng","year":"2014","journal-title":"Nat Protoc"},{"key":"2025012209311197900_btae761-B6","doi-asserted-by":"crossref","first-page":"347","DOI":"10.1038\/d41586-021-03628-7","article-title":"Python power-up: new image tool visualizes complex data","volume":"600","author":"Perkel","year":"2021","journal-title":"Nature"},{"key":"2025012209311197900_btae761-B7","doi-asserted-by":"crossref","first-page":"676","DOI":"10.1038\/nmeth.2019","article-title":"Fiji: an open-source platform for biological-image analysis","volume":"9","author":"Schindelin","year":"2012","journal-title":"Nat Methods"},{"key":"2025012209311197900_btae761-B8","doi-asserted-by":"crossref","first-page":"dev199433","DOI":"10.1242\/dev.199433","article-title":"Advances in live imaging early mouse development: exploring the researcher\u2019s interdisciplinary toolkit","volume":"148","author":"Stower","year":"2021","journal-title":"Development"},{"key":"2025012209311197900_btae761-B9","doi-asserted-by":"crossref","first-page":"e109675","DOI":"10.15252\/embj.2021109675","article-title":"3D imaging for driving cancer discovery","volume":"41","author":"van Ineveld","year":"2022","journal-title":"EMBO J"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/advance-article-pdf\/doi\/10.1093\/bioinformatics\/btae761\/61444830\/btae761.pdf","content-type":"application\/pdf","content-version":"am","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/41\/1\/btae761\/61444830\/btae761.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/41\/1\/btae761\/61444830\/btae761.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2025,1,22]],"date-time":"2025-01-22T09:32:38Z","timestamp":1737538358000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/doi\/10.1093\/bioinformatics\/btae761\/7954688"}},"subtitle":[],"editor":[{"given":"Jianlin","family":"Cheng","sequence":"additional","affiliation":[],"role":[{"role":"editor","vocabulary":"crossref"}]}],"short-title":[],"issued":{"date-parts":[[2024,12,26]]},"references-count":9,"journal-issue":{"issue":"1","published-print":{"date-parts":[[2024,12,26]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btae761","relation":{},"ISSN":["1367-4811"],"issn-type":[{"type":"electronic","value":"1367-4811"}],"subject":[],"published-other":{"date-parts":[[2025,1]]},"published":{"date-parts":[[2024,12,26]]},"article-number":"btae761"}}