R453Plus1Toolbox

A package for importing and analyzing data from Roche's Genome Sequencer System.

Bioconductor version: Development (2.8)

The R453Plus1 Toolbox comprises useful functions for the analysis of data generated by Roche's 454 sequencing platform. It adds functions for quality assurance as well as for annotation and visualization of detected variants, complementing the software tools shipped by Roche with their product. Further, a pipeline for the detection of structural variants is provided.

Author: Hans-Ulrich Klein, Christoph Bartenhagen, Christian Ruckert

Maintainer: Hans-Ulrich Klein

To install this package, start R and enter:

source("http:///biocLite.R")
biocLite("R453Plus1Toolbox")    

Documentation

PDF

R Script

A package for importing and analyzing data from Roche's Genome Sequencer System

Reference Manual

Details

biocViews	HighThroughputSequencing, Infrastructure, DataImport, DataRepresentation, Visualization, QualityControl, ReportWriting
Depends	R, Biobase, Biostrings, BSgenome.Scerevisiae.UCSC.sacCer2
Imports	Biobase, biomaRt, Biostrings, BSgenome, IRanges, methods, R2HTML, Rsamtools, rtracklayer, ShortRead
Suggests	rtracklayer, ShortRead, Rsamtools, BSgenome.Hsapiens.UCSC.hg19
System Requirements
License	LGPL-3
URL
Depends On Me
Imports Me
Suggests Me
Version	1.1.2

Package Downloads

Package Source	R453Plus1Toolbox_1.1.2.tar.gz
Windows Binary	R453Plus1Toolbox_1.1.2.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary	R453Plus1Toolbox_1.1.2.tgz
Package Downloads Report	Download Stats