To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("QuasR")

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

QuasR

 

   

This is the development version of QuasR; for the stable release version, see QuasR.

Quantify and Annotate Short Reads in R

Bioconductor version: Development (3.5)

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:

## try http:// if https:// URLs are not supported
source("https://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 Alignment, ChIPSeq, Coverage, Genetics, MethylSeq, Preprocessing, QualityControl, RNASeq, Sequencing, Software
Version 1.15.1
In Bioconductor since BioC 2.12 (R-3.0) (3.5 years)
License GPL-2
Depends parallel, GenomicRanges(>= 1.13.3), Rbowtie
Imports methods, grDevices, graphics, utils, zlibbioc, BiocGenerics, S4Vectors(>= 0.9.25), IRanges, BiocInstaller, Biobase, Biostrings, BSgenome, Rsamtools(>= 1.19.38), GenomicFeatures(>= 1.17.13), ShortRead(>= 1.19.1), GenomicAlignments, BiocParallel, GenomeInfoDb, rtracklayer, GenomicFiles
LinkingTo Rsamtools
Suggests 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_1.15.1.tar.gz
Windows Binary
Mac OS X 10.9 (Mavericks) QuasR_1.15.1.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/QuasR
Package Short Url http://bioconductor.org/packages/QuasR/
Package Downloads Report Download Stats

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