To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("EBSeqHMM")

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

EBSeqHMM

   

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

Bayesian analysis for identifying gene or isoform expression changes in ordered RNA-seq experiments

Bioconductor version: 3.1

The EBSeqHMM package implements an auto-regressive hidden Markov model for statistical analysis in ordered RNA-seq experiments (e.g. time course or spatial course data). The EBSeqHMM package provides functions to identify genes and isoforms that have non-constant expression profile over the time points/positions, and cluster them into expression paths.

Author: Ning Leng, Christina Kendziorski

Maintainer: Ning Leng <nleng at wisc.edu>

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

Installation

To install this package, start R and enter:

## try http:// if https:// URLs are not supported
source("https://bioconductor.org/biocLite.R")
biocLite("EBSeqHMM")

Documentation

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

browseVignettes("EBSeqHMM")

 

PDF R Script HMM
PDF   Reference Manual
Text   NEWS

Details

biocViews Bayesian, DifferentialExpression, GeneExpression, HiddenMarkovModel, MultipleComparison, RNASeq, Sequencing, Software, StatisticalMethod, TimeCourse
Version 1.2.0
In Bioconductor since BioC 3.0 (R-3.1) (1.5 years)
License Artistic-2.0
Depends EBSeq
Imports
LinkingTo
Suggests
SystemRequirements
Enhances
URL
Depends On Me
Imports Me
Suggests Me
Build Report  

Package Archives

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

Package Source EBSeqHMM_1.2.0.tar.gz
Windows Binary EBSeqHMM_1.2.0.zip
Mac OS X 10.6 (Snow Leopard) EBSeqHMM_1.2.0.tgz
Mac OS X 10.9 (Mavericks) EBSeqHMM_1.2.0.tgz
Subversion source (username/password: readonly)
Git source https://github.com/Bioconductor-mirror/EBSeqHMM/tree/release-3.1
Package Short Url http://bioconductor.org/packages/EBSeqHMM/
Package Downloads Report Download Stats

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