BitSeq

This package is for version 3.1 of Bioconductor; for the stable, up-to-date release version, see BitSeq.

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

Bioconductor version: 3.1

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: Antti Honkela <antti.honkela at hiit.fi>, Panagiotis Papastamoulis <panagiotis.papastamoulis at manchester.ac.uk>

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://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")

Details

Package Archives

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