{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,6,2]],"date-time":"2026-06-02T03:58:05Z","timestamp":1780372685090,"version":"3.54.1"},"reference-count":19,"publisher":"Oxford University Press (OUP)","issue":"12","license":[{"start":{"date-parts":[[2024,11,29]],"date-time":"2024-11-29T00:00:00Z","timestamp":1732838400000},"content-version":"vor","delay-in-days":1,"URL":"https:\/\/creativecommons.org\/licenses\/by\/4.0\/"}],"funder":[{"name":"Research Foundation \u2013 Flanders"},{"name":"European Union Horizon 2020 project MOOD","award":["874850"],"award-info":[{"award-number":["874850"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2024,11,28]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Motivation<\/jats:title>\n                    <jats:p>Bayesian phylogeographic analyses are pivotal in reconstructing the spatio-temporal dispersal histories of pathogens. However, interpreting the complex outcomes of phylogeographic reconstructions requires sophisticated visualization tools.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Results<\/jats:title>\n                    <jats:p>To meet this challenge, we developed spread.gl, an open-source, feature-rich browser application offering a smooth and intuitive visualization tool for both discrete and continuous phylogeographic inferences, including the animation of pathogen geographic dispersal through time. Spread.gl can render and combine the visualization of multiple layers that contain information extracted from the input phylogeny and diverse environmental data layers, enabling researchers to explore which environmental factors may have impacted pathogen dispersal patterns before conducting formal testing. We showcase the visualization features of spread.gl with representative examples, including the smooth animation of a phylogeographic reconstruction based on &amp;gt;17\u00a0000 SARS-CoV-2 genomic sequences.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>Source code, installation instructions, example input data, and outputs of spread.gl are accessible at https:\/\/github.com\/GuyBaele\/SpreadGL.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btae721","type":"journal-article","created":{"date-parts":[[2024,11,27]],"date-time":"2024-11-27T15:27:45Z","timestamp":1732721265000},"source":"Crossref","is-referenced-by-count":12,"title":["spread.gl: visualizing pathogen dispersal in a high-performance browser application"],"prefix":"10.1093","volume":"40","author":[{"ORCID":"https:\/\/orcid.org\/0009-0007-9939-8192","authenticated-orcid":false,"given":"Yimin","family":"Li","sequence":"first","affiliation":[{"name":"Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven , Leuven 3000,","place":["Belgium"]},{"name":"Spatial Epidemiology Lab (SpELL), Universit\u00e9 Libre de Bruxelles , Brussels 1050,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-0532-0658","authenticated-orcid":false,"given":"Nena","family":"Bollen","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven , Leuven 3000,","place":["Belgium"]},{"name":"Spatial Epidemiology Lab (SpELL), Universit\u00e9 Libre de Bruxelles , Brussels 1050,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6354-4943","authenticated-orcid":false,"given":"Samuel L","family":"Hong","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven , Leuven 3000,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0009-0000-2134-1515","authenticated-orcid":false,"given":"Marius","family":"Brusselmans","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven , Leuven 3000,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-7760-2112","authenticated-orcid":false,"given":"Fabiana","family":"Gambaro","sequence":"additional","affiliation":[{"name":"Spatial Epidemiology Lab (SpELL), Universit\u00e9 Libre de Bruxelles , Brussels 1050,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-2507-0430","authenticated-orcid":false,"given":"Joon","family":"Klaps","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven , Leuven 3000,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9818-479X","authenticated-orcid":false,"given":"Marc A","family":"Suchard","sequence":"additional","affiliation":[{"name":"Department of Biomathematics, David Geffen School of Medicine, University of California Los Angeles , Los Angeles, CA 90095,","place":["United States"]},{"name":"Department of Biostatistics, Fielding School of Public Health, University of California Los Angeles , Los Angeles, CA 90095,","place":["United States"]},{"name":"Department of Human Genetics, David Geffen School of Medicine, University of California Los Angeles , Los Angeles, CA 90095,","place":["United States"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-4337-3707","authenticated-orcid":false,"given":"Andrew","family":"Rambaut","sequence":"additional","affiliation":[{"name":"Institute of Ecology and Evolution, University of Edinburgh , Edinburgh, EH9 3FL,","place":["United Kingdom"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0003-2826-5353","authenticated-orcid":false,"given":"Philippe","family":"Lemey","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven , Leuven 3000,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-9558-1052","authenticated-orcid":false,"given":"Simon","family":"Dellicour","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven , Leuven 3000,","place":["Belgium"]},{"name":"Spatial Epidemiology Lab (SpELL), Universit\u00e9 Libre de Bruxelles , Brussels 1050,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1915-7732","authenticated-orcid":false,"given":"Guy","family":"Baele","sequence":"additional","affiliation":[{"name":"Department of Microbiology, Immunology and Transplantation, Rega Institute, KU Leuven , Leuven 3000,","place":["Belgium"]}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2024,11,29]]},"reference":[{"key":"2024121804355793600_btae721-B1","doi-asserted-by":"crossref","first-page":"2167","DOI":"10.1093\/molbev\/msw082","article-title":"SpreaD3: interactive visualization of spatiotemporal history and trait evolutionary processes","volume":"33","author":"Bielejec","year":"2016","journal-title":"Mol Biol 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