To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("QuasR")

In most cases, you don't need to download the package archive at all.

QuasR

Quantify and Annotate Short Reads in R

Bioconductor version: Release (3.0)

This package provides a framework for the quantification and analysis of Short Reads. It covers a complete workflow starting from raw sequence reads, over creation of alignments and quality control plots, to the quantification of genomic regions of interest.

Author: Anita Lerch, Dimos Gaiditzis and Michael Stadler

Maintainer: Michael Stadler <michael.stadler at fmi.ch>

Citation (from within R, enter citation("QuasR")):

Installation

To install this package, start R and enter:

source("http://bioconductor.org/biocLite.R")
biocLite("QuasR")

Documentation

To view documentation for the version of this package installed in your system, start R and enter:

browseVignettes("QuasR")

 

PDF R Script An introduction to QuasR
PDF   Reference Manual
Text   NEWS

Details

biocViews ChIPSeq, Genetics, MethylSeq, Preprocessing, RNASeq, Sequencing, Software
Version 1.6.2
In Bioconductor since BioC 2.12 (R-3.0)
License GPL-2
Depends parallel, GenomicRanges(>= 1.13.3), Rbowtie
Imports methods, zlibbioc, BiocGenerics, S4Vectors, IRanges, BiocInstaller, Biobase, Biostrings, GenomicRanges, BSgenome, Rsamtools(>= 1.13.1), GenomicFeatures(>= 1.17.13), ShortRead(>= 1.19.1), GenomicAlignments
LinkingTo Rsamtools
Suggests Rsamtools, rtracklayer, Gviz, RUnit, BiocStyle
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

Follow Installation instructions to use this package in your R session.

Package Source QuasR_1.6.2.tar.gz
Windows Binary QuasR_1.6.2.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) QuasR_1.6.2.tgz
Mac OS X 10.9 (Mavericks) QuasR_1.6.2.tgz
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