BioConductor

GenomicAlignments 1.16.0

Representation and manipulation of short genomic alignments

Released Apr 30, 2018 by Bioconductor Package Maintainer

This package can be loaded by Renjin but all tests failed.

Dependencies

GenomeInfoDb 1.16.0 Biostrings 2.48.0 GenomicRanges 1.32.6 BiocGenerics 0.26.0 IRanges 2.14.10 BiocParallel 1.14.2 S4Vectors 0.18.3 SummarizedExperiment 1.10.1 Rsamtools 1.32.3

Provides efficient containers for storing and manipulating short genomic alignments (typically obtained by aligning short reads to a reference genome). This includes read counting, computing the coverage, junction detection, and working with the nucleotide content of the alignments.

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>GenomicAlignments</artifactId>
    <version>1.16.0-b7</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:GenomicAlignments')

Test Results

This package was last tested against Renjin 0.9.2689 on Aug 27, 2018.

Source

R
C

Release History