Differential Analysis of RNA-Seq Data with Poisson Mixture Models

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Description

A Poisson mixture model is implemented to identify differentially expressed genes from RNA-seq data.

Details

Package: HTSDiff
Type: Package
Version: 1.0.6
Date: 2015-01-18
License: GPL (>=3)
LazyLoad: yes

Author(s)

Andrea Rau, Marie-Laure Martin-Magniette, Cathy Maugis-Rabusseau

Maintainer: Andrea Rau <andrea.rau@jouy.inra.fr>

References

S. Balzergue, G. Rigaill, V. Brunaud, E. Blondet, A. Rau, O. Rogier, J. Caius, C. Maugis-Rabusseau, L. Soubigou-Taconnat, S. Aubourg, C. Lurin, E. Delannoy, and M.-L. Martin-Magniette. (2014) HTSDiff: A Model-Based Clustering Alternative to Test-Based Methods in Differential Gene Expression Analyses by RNA-Seq Benchmarked on Real and Synthetic Datasets (submitted).

Examples

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set.seed(12345)

## Generate synthetic data: 2000 genes under H0
test <- syntheticData(H0number = 2000)

## Mixture model differential analysis
## DEtest <- HTSDiff(test, c(1,1,2,2))