BioConductor

ABSSeq 1.34.1

ABSSeq: a new RNA-Seq analysis method based on modelling absolute expression differences

Dependencies

limma 3.36.2 locfit 1.5-9.1

Inferring differential expression genes by absolute counts difference between two groups, utilizing Negative binomial distribution and moderating fold-change according to heterogeneity of dispersion across expression level.

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>ABSSeq</artifactId>
    <version>1.34.1-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:ABSSeq')

Test Results

This package was last tested against Renjin 0.9.2687 on Aug 25, 2018.

• ABSDataSet-examples
• ABSSeq-examples
• ABSSeqlm-examples
• LevelstoNormFC-examples
• ReplaceOutliersByMAD-examples
• aFoldcomplexDesign-examples
• callDEs-examples
• callParameter-examples
• callParameterwithoutReplicates-examples
• counts-examples
• estimateSizeFactorsForMatrix-examples
• excounts-examples
• genAFold-examples
• groups-examples
• maxRates-examples
• minRates-examples
• minimalDispersion-examples
• normMethod-examples
• normalFactors-examples
• paired-examples
• plotDifftoBase-examples
• qtotalNormalized-examples
• results-examples
• sFactors-examples
• simuN5-examples

Source

Release History

• 1.34.1
• 1.34.0
• 1.33.2
• 1.33.0
• 1.22.8
• 1.8.1
• 1.6.1
• 1.5.1