BioConductor

DNAcopy 1.54.0

DNA copy number data analysis

Released Apr 30, 2018 by Venkatraman E. Seshan

Implements the circular binary segmentation (CBS) algorithm to segment DNA copy number data and identify genomic regions with abnormal copy number.

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.bioconductor</groupId>
    <artifactId>DNAcopy</artifactId>
    <version>1.54.0-b3</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.bioconductor:DNAcopy')

Test Results

This package was last tested against Renjin 0.9.2687 on Aug 24, 2018.

• CNA-examples
• exon.segment-examples
• plot.DNAcopy-examples
• plotSample-examples
• redundancy,20090610,segment
• segment-examples
• segments.p-examples
• segments.summary-examples
• smooth.CNA-examples
• subset.CNA-examples
• zoomIntoRegion-examples

Source

Release History

• 1.54.0
• 1.53.0
• 1.50.1
• 1.46.0
• 1.44.0
• 1.42.0