{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,2,26]],"date-time":"2026-02-26T20:34:11Z","timestamp":1772138051329,"version":"3.50.1"},"reference-count":31,"publisher":"Oxford University Press (OUP)","issue":"14","license":[{"start":{"date-parts":[[2022,5,27]],"date-time":"2022-05-27T00:00:00Z","timestamp":1653609600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"funder":[{"DOI":"10.13039\/501100001665","name":"French National Research Agency","doi-asserted-by":"publisher","id":[{"id":"10.13039\/501100001665","id-type":"DOI","asserted-by":"publisher"}]},{"name":"France-BioImaging Infrastructure","award":["ANR-10-INBS-04-07"],"award-info":[{"award-number":["ANR-10-INBS-04-07"]}]},{"name":"LabEx Cell(n)Scale","award":["ANR-11-LABX-0038"],"award-info":[{"award-number":["ANR-11-LABX-0038"]}]},{"name":"IDEX PSL","award":["ANR-10-IDEX-0001-02"],"award-info":[{"award-number":["ANR-10-IDEX-0001-02"]}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2022,7,11]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Summary<\/jats:title>\n                    <jats:p>Analysis of intra- and extracellular dynamic like vesicles transport involves particle tracking algorithms. The design of a particle tracking pipeline is a routine but tedious task. Therefore, particle dynamics analysis is often performed by combining several pieces of software (filtering, detection, tracking, etc.) requiring many manual operations, and thus leading to poorly reproducible results. Given the new segmentation tools based on deep learning, modularity and interoperability between software have become essential in particle tracking algorithms. A good synergy between a particle detector and a tracker is of paramount importance. In addition, a user-friendly interface to control the quality of estimated trajectories is necessary. To address these issues, we developed STracking, a Python library that allows combining algorithms into standardized particle tracking pipelines.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>STracking is available as a Python library using \u2018pip install\u2019 and the source code is publicly available on GitHub (https:\/\/github.com\/sylvainprigent\/stracking). A graphical interface is available using two napari plugins: napari-stracking and napari-tracks-reader. These napari plugins can be installed via the napari plugins menu or using \u2018pip install\u2019. The napari plugin source codes are available on GitHub (https:\/\/github.com\/sylvainprigent\/napari-tracks-reader, https:\/\/github.com\/sylvainprigent\/napari-stracking).<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Supplementary information<\/jats:title>\n                    <jats:p>Supplementary data are available at Bioinformatics online.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/bioinformatics\/btac365","type":"journal-article","created":{"date-parts":[[2022,5,31]],"date-time":"2022-05-31T15:42:50Z","timestamp":1654011770000},"page":"3671-3673","source":"Crossref","is-referenced-by-count":8,"title":["STracking: a free and open-source Python library for particle tracking and analysis"],"prefix":"10.1093","volume":"38","author":[{"given":"Sylvain","family":"Prigent","sequence":"first","affiliation":[{"name":"SERPICO Project Team, Inria Centre Rennes-Bretagne Atlantique , F-35042 Rennes, France"},{"name":"SERPICO Project Team, UMR144 CNRS Institut Curie, PSL Research University , F-75005 Paris, France"}]},{"ORCID":"https:\/\/orcid.org\/0000-0002-1786-8207","authenticated-orcid":false,"given":"Cesar Augusto","family":"Valades-Cruz","sequence":"additional","affiliation":[{"name":"SERPICO Project Team, Inria Centre Rennes-Bretagne Atlantique , F-35042 Rennes, France"},{"name":"SERPICO Project Team, UMR144 CNRS Institut Curie, PSL Research University , F-75005 Paris, France"}]},{"given":"Ludovic","family":"Leconte","sequence":"additional","affiliation":[{"name":"SERPICO Project Team, Inria Centre Rennes-Bretagne Atlantique , F-35042 Rennes, France"},{"name":"SERPICO Project Team, UMR144 CNRS Institut Curie, PSL Research University , F-75005 Paris, France"}]},{"given":"Jean","family":"Salamero","sequence":"additional","affiliation":[{"name":"SERPICO Project Team, Inria Centre Rennes-Bretagne Atlantique , F-35042 Rennes, France"},{"name":"SERPICO Project Team, UMR144 CNRS Institut Curie, PSL Research University , F-75005 Paris, France"}]},{"ORCID":"https:\/\/orcid.org\/0000-0001-6263-0452","authenticated-orcid":false,"given":"Charles","family":"Kervrann","sequence":"additional","affiliation":[{"name":"SERPICO Project Team, Inria Centre Rennes-Bretagne Atlantique , F-35042 Rennes, France"},{"name":"SERPICO Project Team, UMR144 CNRS Institut Curie, PSL Research University , F-75005 Paris, France"}]}],"member":"286","published-online":{"date-parts":[[2022,5,27]]},"reference":[{"key":"2023041405364466000_","author":"Allan","year":"2021"},{"key":"2023041405364466000_","author":"Breddels","year":"2018"},{"key":"2023041405364466000_","doi-asserted-by":"crossref","first-page":"60","DOI":"10.1088\/1478-3967\/2\/1\/008","article-title":"Tracking single particles: a user-friendly quantitative evaluation","volume":"2","author":"Carter","year":"2005","journal-title":"Phys. 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