CRAN

TDCor 0.1-2

Gene Network Inference from Time-Series Transcriptomic Data

Released Oct 26, 2015 by Mikael Lucas

This package is available for Renjin and there are no known compatibility issues.

Dependencies

deSolve 1.21

The Time-Delay Correlation algorithm (TDCor) reconstructs the topology of a gene regulatory network (GRN) from time-series transcriptomic data. The algorithm is described in details in Lavenus et al., Plant Cell, 2015. It was initially developed to infer the topology of the GRN controlling lateral root formation in Arabidopsis thaliana. The time-series transcriptomic dataset which was used in this study is included in the package to illustrate how to use it.

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>TDCor</artifactId>
    <version>0.1-2-b31</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.cran:TDCor')

Test Results

This package was last tested against Renjin 0.9.2644 on Jun 2, 2018.

Source

R

View GitHub Mirror

Release History