DOI: 10.18129/B9.bioc.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 (3.8)

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")):


To install this package, start R and enter:

if (!requireNamespace("BiocManager", quietly=TRUE))
BiocManager::install("QuasR", version = "devel")


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



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


biocViews Alignment, ChIPSeq, Coverage, Genetics, MethylSeq, Preprocessing, QualityControl, RNASeq, Sequencing, Software
Version 1.21.2
In Bioconductor since BioC 2.12 (R-3.0) (5.5 years)
License GPL-2
Depends parallel, GenomicRanges(>= 1.13.3), Rbowtie
Imports methods, grDevices, graphics, utils, zlibbioc, BiocGenerics, S4Vectors(>= 0.9.25), IRanges, BiocManager, 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, knitr, rmarkdown
Depends On Me
Imports Me
Suggests Me
Build Report  

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

Source Package QuasR_1.21.2.tar.gz
Windows Binary QuasR_1.21.2.zip (64-bit only)
Mac OS X 10.11 (El Capitan) QuasR_1.21.2.tgz
Source Repository git clone https://git.bioconductor.org/packages/QuasR
Source Repository (Developer Access) git clone git@git.bioconductor.org:packages/QuasR
Package Short Url http://bioconductor.org/packages/QuasR/
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