To install this package, start R and enter:

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

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

htSeqTools

Quality Control, Visualization and Processing for High-Throughput Sequencing data

Bioconductor version: Release (2.14)

We provide efficient, easy-to-use tools for High-Throughput Sequencing (ChIP-seq, RNAseq etc.). These include MDS plots (analogues to PCA), detecting inefficient immuno-precipitation or over-amplification artifacts, tools to identify and test for genomic regions with large accumulation of reads, and visualization of coverage profiles.

Author: Evarist Planet, Camille Stephan-Otto, Oscar Reina, Oscar Flores, David Rossell

Maintainer: Oscar Reina <oscar.reina at irbbarcelona.org>

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

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("htSeqTools")

 

PDF R Script Manual for the htSeqTools library
PDF   Reference Manual
Text   NEWS

Details

biocViews QualityControl, Sequencing, Software
Version 1.10.0
In Bioconductor since BioC 2.9 (R-2.14)
License GPL (>=2)
Depends R (>= 2.12.2), methods, BiocGenerics(>= 0.1.0), Biobase, IRanges, methods, MASS, BSgenome, GenomicRanges
Imports
Suggests
System Requirements
URL
Depends On Me
Imports Me
Suggests Me

Package Archives

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

Package Source htSeqTools_1.10.0.tar.gz
Windows Binary htSeqTools_1.10.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) htSeqTools_1.10.0.tgz
Mac OS X 10.9 (Mavericks) htSeqTools_1.10.0.tgz
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