CRAN

TPEA 3.1.0

A Novel Topology-Based Pathway Enrichment Analysis Approach

Released Jun 25, 2017 by Wei Jiang

This package can be loaded by Renjin but 2 out 3 tests failed. An older version of this package is more compatible with Renjin.

Dependencies

Matrix 1.2-14 igraph 1.2.1 MESS 0.5.0 RCurl XML 3.98-1.11 foreach 1.4.4

We described a novel Topology-based pathway enrichment analysis, which integrated the global position of the nodes and the topological property of the pathways in Kyoto Encyclopedia of Genes and Genomes Database. We also provide some functions to obtain the latest information about pathways to finish pathway enrichment analysis using this method.

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>TPEA</artifactId>
    <version>3.1.0-b12</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:TPEA')

Test Results

This package was last tested against Renjin 0.9.2635 on Apr 26, 2018.

Source

R

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Release History