BioConductor

AMOUNTAIN 1.6.0

Active modules for multilayer weighted gene co-expression networks: a continuous optimization approach

Released Nov 12, 2016 by Dong Li

This package can be loaded by Renjin but there was an error compiling C/FORTRAN sources and 3 out 10 tests failed.

A pure data-driven gene network, weighted gene co-expression network (WGCN) could be constructed only from expression profile. Different layers in such networks may represent different time points, multiple conditions or various species. AMOUNTAIN aims to search active modules in multi-layer WGCN using a continuous optimization approach.

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>AMOUNTAIN</artifactId>
    <version>1.6.0-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>

View build log

Renjin CLI

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

library('org.renjin.bioconductor:AMOUNTAIN')

Test Results

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