BioConductor

topGO 2.32.0

Enrichment Analysis for Gene Ontology

Released Feb 3, 2016 by Adrian Alexa

This package can be loaded by Renjin but 8 out 17 tests failed.

Dependencies

GO.db 3.6.0 lattice 0.20-35 AnnotationDbi 1.42.0 DBI 1.0.0 BiocGenerics 0.26.0 SparseM 1.77 Biobase 2.40.0 graph 1.58.0 matrixStats 0.53.1

topGO package provides tools for testing GO terms while accounting for the topology of the GO graph. Different test statistics and different methods for eliminating local similarities and dependencies between GO terms can be implemented and applied.

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>topGO</artifactId>
    <version>2.32.0-b1</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.bioconductor:topGO')

Test Results

This package was last tested against Renjin 0.9.2643 on May 4, 2018.