BioConductor

MetCirc 1.10.0

Navigating mass spectral similarity in high-resolution MS/MS metabolomics data

Released Apr 16, 2018 by Thomas Naake

This package can be loaded by Renjin but 21 out 38 tests failed.

Dependencies

shiny 1.0.5 scales 0.5.0 amap 0.8-14 circlize 0.4.3

MetCirc comprises a workflow to interactively explore high-resolution MS/MS metabolomics data: create an MSP object, a format for MS/MS library data, bin m/z values of precursors, calculate similarity between precursors based on the normalised dot product and visualise similarities in a circular layout. Within the interactive framework the user can annotate MS/MS features based on their similarity to (known) related MS/MS features.

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>MetCirc</artifactId>
    <version>1.10.0-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:MetCirc')

Test Results

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

Source

R

Release History