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

BitSeq

Transcript expression inference and differential expression analysis for RNA-seq data

Bioconductor version: 2.13

The BitSeq package is targeted for transcript expression analysis and differential expression analysis of RNA-seq data in two stage process. In the first stage it uses Bayesian inference methodology to infer expression of individual transcripts from individual RNA-seq experiments. The second stage of BitSeq embraces the differential expression analysis of transcript expression. Providing expression estimates from replicates of multiple conditions, Log-Normal model of the estimates is used for inferring the condition mean transcript expression and ranking the transcripts based on the likelihood of differential expression.

Author: Peter Glaus, Antti Honkela and Magnus Rattray

Maintainer: Peter Glaus <glaus at cs.man.ac.uk>

Installation

To install this package, start R and enter:

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

Documentation

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

browseVignettes("BitSeq")

 

PDF	R Script	BitSeq User Guide
PDF		Reference Manual
Text		NEWS
Text		LICENSE

Details

biocViews	DifferentialExpression, GeneExpression, HighThroughputSequencing, RNAseq, Software
Version	1.6.1
In Bioconductor since	BioC 2.10 (R-2.15)
License	Artistic-2.0 + file LICENSE
Depends	Rsamtools, zlibbioc
Imports	IRanges
Suggests	edgeR, DESeq
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	BitSeq_1.6.1.tar.gz
Windows Binary	BitSeq_1.6.1.zip (32- & 64-bit)
Mac OS X 10.6 (Snow Leopard)	BitSeq_1.6.1.tgz
Browse/checkout source	(username/password: readonly)
Package Downloads Report	Download Stats