{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,9,2]],"date-time":"2026-09-02T21:59:35Z","timestamp":1788386375558,"version":"build-2803163510"},"reference-count":5,"publisher":"Oxford University Press (OUP)","issue":"3","license":[{"start":{"date-parts":[[2018,7,17]],"date-time":"2018-07-17T00:00:00Z","timestamp":1531785600000},"content-version":"vor","delay-in-days":0,"URL":"https:\/\/academic.oup.com\/journals\/pages\/open_access\/funder_policies\/chorus\/standard_publication_model"}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2019,2,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n                  <jats:sec>\n                    <jats:title>Summary<\/jats:title>\n                    <jats:p>After more than fifteen years of existence, the R package ape has continuously grown its contents, and has been used by a growing community of users. The release of version 5.0 has marked a leap towards a modern software for evolutionary analyses. Efforts have been put to improve efficiency, flexibility, support for \u2018big data\u2019 (R\u2019s long vectors), ease of use and quality check before a new release. These changes will hopefully make ape a useful software for the study of biodiversity and evolution in a context of increasing data quantity.<\/jats:p>\n                  <\/jats:sec>\n                  <jats:sec>\n                    <jats:title>Availability and implementation<\/jats:title>\n                    <jats:p>ape is distributed through the Comprehensive R Archive Network: http:\/\/cran.r-project.org\/package=ape. Further information may be found at http:\/\/ape-package.ird.fr\/.<\/jats:p>\n                  <\/jats:sec>","DOI":"10.1093\/bioinformatics\/bty633","type":"journal-article","created":{"date-parts":[[2018,7,14]],"date-time":"2018-07-14T13:43:43Z","timestamp":1531575823000},"page":"526-528","source":"Crossref","is-referenced-by-count":8954,"title":["ape 5.0: an environment for modern phylogenetics and evolutionary analyses in R"],"prefix":"10.1093","volume":"35","author":[{"given":"Emmanuel","family":"Paradis","sequence":"first","affiliation":[{"name":"ISEM, IRD, Univ. Montpellier, CNRS, EPHE, Montpellier, France"}],"role":[{"vocabulary":"crossref","role":"author"}]},{"given":"Klaus","family":"Schliep","sequence":"additional","affiliation":[{"name":"Department of Biology, University of Massachusetts Boston, Boston, MA, USA"}],"role":[{"vocabulary":"crossref","role":"author"}]}],"member":"286","published-online":{"date-parts":[[2018,7,17]]},"reference":[{"key":"2023013107243987100_bty633-B1","doi-asserted-by":"crossref","first-page":"532.","DOI":"10.1186\/1471-2105-9-532","article-title":"Extended Newick: it is time for a standard representation of phylogenetic networks","volume":"9","author":"Cardona","year":"2008","journal-title":"BMC Bioinformatics"},{"key":"2023013107243987100_bty633-B2","doi-asserted-by":"crossref","DOI":"10.1007\/978-1-4614-6868-4","volume-title":"Seamless R and C++ Integration with Rcpp","author":"Eddelbuettel","year":"2013"},{"key":"2023013107243987100_bty633-B3","doi-asserted-by":"crossref","first-page":"115","DOI":"10.1038\/nmeth.3252","article-title":"Orchestrating high-throughput genomic analysis with Bioconductor","volume":"12","author":"Huber","year":"2015","journal-title":"Nat. Methods"},{"key":"2023013107243987100_bty633-B4","doi-asserted-by":"crossref","first-page":"289","DOI":"10.1093\/bioinformatics\/btg412","article-title":"APE: analyses of phylogenetics and evolution in R language","volume":"20","author":"Paradis","year":"2004","journal-title":"Bioinformatics"},{"key":"2023013107243987100_bty633-B5","volume-title":"R: A Language and Environment for Statistical Computing.","author":"R Core Team","year":"2017"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/35\/3\/526\/48965372\/bioinformatics_35_3_526.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/35\/3\/526\/48965372\/bioinformatics_35_3_526.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,1,31]],"date-time":"2023-01-31T04:57:30Z","timestamp":1675141050000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/35\/3\/526\/5055127"}},"subtitle":[],"editor":[{"given":"Russell","family":"Schwartz","sequence":"additional","affiliation":[],"role":[{"vocabulary":"crossref","role":"editor"}]}],"short-title":[],"issued":{"date-parts":[[2018,7,17]]},"references-count":5,"journal-issue":{"issue":"3","published-print":{"date-parts":[[2019,2,1]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/bty633","relation":{},"ISSN":["1367-4803","1367-4811"],"issn-type":[{"value":"1367-4803","type":"print"},{"value":"1367-4811","type":"electronic"}],"subject":[],"published-other":{"date-parts":[[2019,2,1]]},"published":{"date-parts":[[2018,7,17]]}}}