BioConductor

metagenomeSeq 1.22.0

Statistical analysis for sparse high-throughput sequencing

Released Jul 21, 2016 by Joseph N. Paulson

This package can be loaded by Renjin but 35 out 60 tests failed.

Dependencies

RColorBrewer 1.1-2 glmnet 2.0-16 limma 3.36.0 gplots 3.0.1 Matrix 1.2-14 Biobase 2.40.0 matrixStats 0.53.1 foreach 1.4.4

metagenomeSeq is designed to determine features (be it Operational Taxanomic Unit (OTU), species, etc.) that are differentially abundant between two or more groups of multiple samples. metagenomeSeq is designed to address the effects of both normalization and under-sampling of microbial communities on disease association detection and the testing of feature correlations.

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>metagenomeSeq</artifactId>
    <version>1.22.0-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:metagenomeSeq')

Test Results

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

Source

R

Release History