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adegenet: adegenet version 2.0.1

Thibaut Jombart; Zhian N. Kamvar; Roman Luštrik; Klaus Schliep; Vladimir Mikryukov; Brian Knaus


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{
  "description": "<a class=\"anchor\" href=\"#adegenet-version-201\"><span class=\"octicon octicon-link\"></span></a>Adegenet version 2.0.1\n\n<p>This version contains a few new features, speedups, and bug fixes</p>\n\n\n<a class=\"anchor\" href=\"#new-features\"><span class=\"octicon octicon-link\"></span></a>NEW FEATURES\n\n<ul>\n<li><p>Hs() is now much faster and will scale better for large number of loci</p></li>\n<li><p>Hs.test() allows for testing differences in expected heterozygosity between two\ngroups of individuals</p></li>\n<li><p>strata tutorial is now available via adegenetTutorial(which=&quot;strata&quot;)</p></li>\n<li><p>repool can now handle objects with no population information, and can return a\nlist of repooled genind (argument 'list' defauling to FALSE)</p></li>\n<li><p>read.fstat() can now handle missing data coded by any number of &quot;0&quot;</p></li>\n<li><p>scatter.dapc() function can now label individuals using orditorp() function\nfrom vegan package, which takes care of overlapping (See issue #100)</p></li>\n<li><p>df2genind() is now faster at handling missing data (See issue #114)</p></li>\n<li><p>the summary method has better formatting</p></li>\n</ul>\n\n\n<a class=\"anchor\" href=\"#bug-fixes\"><span class=\"octicon octicon-link\"></span></a>BUG FIXES\n\n<ul>\n<li><p>Hs() no longer returns NaN if one locus has not been typed; instead,\ncomputations are done using all available loci</p></li>\n<li><p>adegenetTutorial() now opens up-to-date tutorials</p></li>\n<li><p>subsetting genlight objects now treats missing data appropriately when given\nlogical, character, or negative subscripts. (See issue #83)</p></li>\n<li><p>fixed occasional spurious warning about duplicated individual labels in\ndf2genind()</p></li>\n<li><p>fixed issues with mis-placed missing data in df2genind() when samples were\nlabeled with numbers (See issue #96)</p></li>\n<li><p>frequencies can now be obtained from P/A genpop objects (See issue #105)</p></li>\n<li><p>Windows no longer throws an error with as.genlight() (See issue #109)</p></li>\n<li><p>read.genpop() now returns individual names (See issue #117)</p></li>\n</ul>", 
  "license": "", 
  "creator": [
    {
      "affiliation": "Imperial College London", 
      "@type": "Person", 
      "name": "Thibaut Jombart"
    }, 
    {
      "affiliation": "Oregon State University", 
      "@type": "Person", 
      "name": "Zhian N. Kamvar"
    }, 
    {
      "affiliation": "PhD student", 
      "@type": "Person", 
      "name": "Roman Lu\u0161trik"
    }, 
    {
      "@type": "Person", 
      "name": "Klaus Schliep"
    }, 
    {
      "affiliation": "IPAE", 
      "@type": "Person", 
      "name": "Vladimir Mikryukov"
    }, 
    {
      "affiliation": "USDA-Agricultural Research Service", 
      "@type": "Person", 
      "name": "Brian Knaus"
    }
  ], 
  "url": "https://zenodo.org/record/46188", 
  "codeRepository": "https://github.com/thibautjombart/adegenet/tree/2.0.1", 
  "datePublished": "2016-02-17", 
  "version": "2.0.1", 
  "@context": "https://schema.org/", 
  "identifier": "https://doi.org/10.5281/zenodo.46188", 
  "@id": "https://doi.org/10.5281/zenodo.46188", 
  "@type": "SoftwareSourceCode", 
  "name": "adegenet: adegenet version 2.0.1"
}
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