htSeqTools

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

Bioconductor version: 2.9

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>

To install this package, start R and enter:

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

To cite this package in a publication, start R and enter:

    citation("htSeqTools")

Documentation

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

Details

biocViews HighThroughputSequencing, QualityControl
Depends R (>= 2.12.2), Biobase, IRanges, methods, MASS, BSgenome, GenomicRanges
Imports
Suggests
System Requirements
License GPL (>=2)
URL
Depends On Me
Imports Me
Suggests Me
Version 1.0.0
Since Bioconductor 2.9 (R-2.14)

Package Downloads

Package Source htSeqTools_1.0.0.tar.gz
Windows Binary htSeqTools_1.0.0.zip (32- & 64-bit)
MacOS 10.5 (Leopard) binary htSeqTools_1.0.0.tgz
Package Downloads Report Download Stats

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Fred Hutchinson Cancer Research Center