CRAN

DNAseqtest 1.0

Generating and Testing DNA Sequences

Released Mar 24, 2016 by Hasinur Rahaman Khan

Generates DNA sequences based on Markov model techniques for matched sequences. This can be generalized to several sequences. The sequences (taxa) are then arranged in an evolutionary tree (phylogenetic tree) depicting how taxa diverge from their common ancestors. This gives the tests and estimation methods for the parameters of different models. Standard phylogenetic methods assume stationarity, homogeneity and reversibility for the Markov processes, and often impose further restrictions on the parameters.

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>DNAseqtest</artifactId>
    <version>1.0-b27</version>
  </dependency>
</dependencies>
<repositories>
  <repository>
    <id>bedatadriven</id>
    <name>bedatadriven public repo</name>
    <url>https://nexus.bedatadriven.com/content/groups/public/</url>
  </repository>
</repositories>

View build log

Renjin CLI

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

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

Test Results

This package was last tested against Renjin 0.9.2644 on Jun 1, 2018.

• DNAseqtest-package-examples
• Distance-examples
• Fmatrix-examples
• Ntml-examples
• Pt-examples
• Smatrix-examples
• TEST2-examples
• TEST3-examples
• gn-examples
• gn2-examples
• gn3sim-examples
• likelihood-examples
• simapp-examples
• simemb-examples

Source

View GitHub Mirror

Release History

• 1.0