CRAN
MIPHENO 1.2
Mutant Identification through Probabilistic High throughput Enabled NOrmalization
Released Jan 27, 2012 by Shannon M. Bell
Dependencies
This package contains functions to carry out processing of high throughput data analysis and detection of putative hits/mutants. Contents include a function for post-hoc quality control for removal of outlier sample sets, a median-based normalization method for use in datasets where there are no explicit controls and where most of the responses are of the wildtype/no response class (see accompanying paper). The package also includes a way to prioritize individuals of interest using am empirical cumulative distribution function. Methods for generating synthetic data as well as data from the Chloroplast 2010 project are included.
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>MIPHENO</artifactId>
<version>1.2-b41</version>
</dependency>
</dependencies>
<repositories>
<repository>
<id>bedatadriven</id>
<name>bedatadriven public repo</name>
<url>https://nexus.bedatadriven.com/content/groups/public/</url>
</repository>
</repositories>
Renjin CLI
If you're using Renjin from the command line, you load this library by invoking:
library('org.renjin.cran:MIPHENO')
Test Results
This package was last tested against Renjin 0.9.2625 on Apr 9, 2018.