{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2026,4,27]],"date-time":"2026-04-27T14:31:54Z","timestamp":1777300314710,"version":"3.51.4"},"reference-count":9,"publisher":"Oxford University Press (OUP)","issue":"3","content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":[],"published-print":{"date-parts":[[2010,2,1]]},"abstract":"<jats:title>Abstract<\/jats:title>\n               <jats:p>Summary: pegas (Population and Evolutionary Genetics Analysis System) is a new package for the analysis of population genetic data. It is written in R and is integrated with two other existing R packages (ape and adegenet). pegas provides functions for standard population genetic methods, as well as low-level functions for developing new methods. The flexible and efficient graphical capabilities of R are used for plotting haplotype networks as well as for other functionalities. pegas emphasizes the need to further develop an integrated\u2013modular approach for software dedicated to the analysis of population genetic data.<\/jats:p>\n               <jats:p>Availability: pegas is distributed through the Comprehensive R Archive Network (CRAN): http:\/\/cran.r-project.org\/web\/packages\/pegas\/index.html Further information may be found at: http:\/\/ape.mpl.ird.fr\/pegas\/<\/jats:p>\n               <jats:p>Contact: \u00a0emmanuel.paradis@ird.fr<\/jats:p>","DOI":"10.1093\/bioinformatics\/btp696","type":"journal-article","created":{"date-parts":[[2010,1,16]],"date-time":"2010-01-16T01:14:00Z","timestamp":1263604440000},"page":"419-420","source":"Crossref","is-referenced-by-count":2297,"title":["pegas: an R package for population genetics with an integrated\u2013modular approach"],"prefix":"10.1093","volume":"26","author":[{"given":"Emmanuel","family":"Paradis","sequence":"first","affiliation":[{"name":"Institut de Recherche pour le D\u00e9veloppement, UR175 CAVIAR, BP 5095, 361 rue Jean-Fran\u00e7ois Breton, F-34196 Montpellier C\u00e9dex 5, France"}]}],"member":"286","published-online":{"date-parts":[[2010,2,1]]},"reference":[{"key":"2023012511003585800_B1","doi-asserted-by":"crossref","DOI":"10.1007\/978-0-387-75936-4","volume-title":"Software for Data Analysis: Programming with R","author":"Chambers","year":"2008"},{"key":"2023012511003585800_B2","doi-asserted-by":"crossref","first-page":"745","DOI":"10.1038\/nrg1904","article-title":"Computer programs for population genetics data analysis: a survival guide","volume":"7","author":"Excoffier","year":"2006","journal-title":"Nat. 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Genet."},{"key":"2023012511003585800_B3","doi-asserted-by":"crossref","DOI":"10.1201\/9781420063684","volume-title":"R Programming for Bioinformatics.","author":"Gentleman","year":"2008"},{"key":"2023012511003585800_B4","doi-asserted-by":"crossref","first-page":"1403","DOI":"10.1093\/bioinformatics\/btn129","article-title":"adegenet: a R package for the multivariate analysis of genetic markers","volume":"24","author":"Jombart","year":"2008","journal-title":"Bioinformatics"},{"key":"2023012511003585800_B5","volume-title":"R Graphics.","author":"Murrell","year":"2006"},{"key":"2023012511003585800_B6","doi-asserted-by":"crossref","DOI":"10.1007\/978-0-387-35100-1","volume-title":"Analysis of Phylogenetics and Evolution with R","author":"Paradis","year":"2006"},{"key":"2023012511003585800_B7","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":"2023012511003585800_B8","article-title":"R: A Language and Environment for Statistical Computing","volume-title":"R Foundation for Statistical Computing","author":"R Development Core Team","year":"2009"},{"key":"2023012511003585800_B9","doi-asserted-by":"crossref","first-page":"619","DOI":"10.1093\/genetics\/132.2.619","article-title":"A cladistic analysis of phenotypic association with haplotypes inferred from restriction endonuclease mapping and DNA sequence data. 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Cladogram estimation","volume":"132","author":"Templeton","year":"1992","journal-title":"Genetics"}],"container-title":["Bioinformatics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/26\/3\/419\/48860629\/bioinformatics_26_3_419.pdf","content-type":"application\/pdf","content-version":"vor","intended-application":"syndication"},{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article-pdf\/26\/3\/419\/48860629\/bioinformatics_26_3_419.pdf","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2023,1,25]],"date-time":"2023-01-25T11:02:42Z","timestamp":1674644562000},"score":1,"resource":{"primary":{"URL":"https:\/\/academic.oup.com\/bioinformatics\/article\/26\/3\/419\/215731"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2010,2,1]]},"references-count":9,"journal-issue":{"issue":"3","published-print":{"date-parts":[[2010,2,1]]}},"URL":"https:\/\/doi.org\/10.1093\/bioinformatics\/btp696","relation":{},"ISSN":["1367-4811","1367-4803"],"issn-type":[{"value":"1367-4811","type":"electronic"},{"value":"1367-4803","type":"print"}],"subject":[],"published-other":{"date-parts":[[2010,2,1]]},"published":{"date-parts":[[2010,2,1]]}}}