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 package is for version 3.2 of Bioconductor; for the stable, up-to-date release version, see QuasR.
Quantify and Annotate Short Reads in R
Bioconductor version: 3.2
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")
| An introduction to QuasR | ||
| Reference Manual | ||
| Text | NEWS |
Details
| biocViews | Alignment, ChIPSeq, Coverage, Genetics, MethylSeq, Preprocessing, QualityControl, RNASeq, Sequencing, Software |
| Version | 1.10.1 |
| In Bioconductor since | BioC 2.12 (R-3.0) (3 years) |
| License | GPL-2 |
| Depends | parallel, GenomicRanges(>= 1.13.3), Rbowtie |
| Imports | methods, zlibbioc, BiocGenerics, S4Vectors, 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_1.10.1.tar.gz |
| Windows Binary | QuasR_1.10.1.zip (64-bit only) |
| Mac OS X 10.6 (Snow Leopard) | QuasR_1.10.0.tgz |
| Mac OS X 10.9 (Mavericks) | QuasR_1.10.1.tgz |
| Subversion source | (username/password: readonly) |
| Git source | https://github.com/Bioconductor-mirror/QuasR/tree/release-3.2 |
| Package Short Url | http://bioconductor.org/packages/QuasR/ |
| Package Downloads Report | Download Stats |
Documentation »
Bioconductor
- Package vignettes and manuals.
- Workflows for learning and use.
- Course and conference material.
- Videos.
- Community resources and tutorials.
R / CRAN packages and documentation
Support »
Please read the posting guide. Post questions about Bioconductor to one of the following locations:
- Support site - for questions about Bioconductor packages
- Bioc-devel mailing list - for package developers
