To install this package, start R and enter:

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

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

seqbias

Estimation of per-position bias in high-throughput sequencing data

Bioconductor version: Release (3.0)

This package implements a model of per-position sequencing bias in high-throughput sequencing data using a simple Bayesian network, the structure and parameters of which are trained on a set of aligned reads and a reference genome sequence.

Author: Daniel Jones <dcjones at cs.washington.edu>

Maintainer: Daniel Jones <dcjones at cs.washington.edu>

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

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("seqbias")

 

PDF R Script Assessing and Adjusting for Technical Bias in High Throughput Sequencing Data
PDF   Reference Manual

Details

biocViews Sequencing, Software
Version 1.14.0
In Bioconductor since BioC 2.8 (R-2.13)
License LGPL-3
Depends R (>= 2.13.0), GenomicRanges(>= 0.1.0), Biostrings(>= 2.15.0), methods
Imports zlibbioc
LinkingTo Rsamtools
Suggests Rsamtools, ggplot2
SystemRequirements
Enhances
URL
Depends On Me ReQON
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source seqbias_1.14.0.tar.gz
Windows Binary seqbias_1.14.0.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard) seqbias_1.14.0.tgz
Mac OS X 10.9 (Mavericks) seqbias_1.14.0.tgz
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