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
Suggests Rsamtools, ggplot2
System Requirements
URL
Depends On Me ReQON
Imports Me
Suggests Me

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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