CRAN

DEMEtics 0.8.1

Calculation of Gst and D values characterizing the genetic differentiation between populations.

Released Aug 16, 2010 by Alexander Jueterbock,

This package can be loaded by Renjin but 3 out 18 tests failed.

Out of a table comprising allelic data of at least one locus for several individuals and from at least two populations, measurements of genetic differentiation (i.e. D, Dest, Dest.Chao, Gst and Gst.est (Jost, 2008)) can be calculated. P-values and 95% confidence intervals are calculated according to Manly (1997) using a bootstrap method. Thereby, for each locus, alleles are reallocated over populations if they are all in Hardy Weinberg Equilibrium (HWE). If not, the genotypes are reallocated, since alleles can not be assumed to be inherited independently from each other (Goudet, 1996). The p-values state how much the empirical found allocation of alleles over populations differs from an allocation that could arise by chance alone. In the case that more than two populations are compared pairwise, the p-values are adjusted besides using bonferroni correction in several other ways due to the multiple comparison from one data set.

Installation

Maven

This package can be included as a dependency from a Java or Scala project by including the following your project's pom.xml file. Read more about embedding Renjin in JVM-based projects.

<dependencies>
  <dependency>
    <groupId>org.renjin.cran</groupId>
    <artifactId>DEMEtics</artifactId>
    <version>0.8.1-b35</version>
  </dependency>
</dependencies>
<repositories>
  <repository>
    <id>bedatadriven</id>
    <name>bedatadriven public repo</name>
    <url>https://nexus.bedatadriven.com/content/groups/public/</url>
  </repository>
</repositories>

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Renjin CLI

If you're using Renjin from the command line, you load this library by invoking:

library('org.renjin.cran:DEMEtics')

Test Results

This package was last tested against Renjin 0.9.2644 on Jun 2, 2018.

Source

R

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Release History