R (>= 2.10.0), plotrix, ggplot2, RColorBrewer
This package implements a Poisson mixture model to cluster observations (e.g., genes) in high throughput sequencing data. Parameter estimation is performed using either the EM or CEM algorithm, and the ICL criterion is used for model selection (i.e., to choose the number of clusters).

Clustering High-Throughput Transcriptome Sequencing (HTS) Data
Andrea Rau, Gilles Celeux, Marie-Laure Martin-Magniette, Cathy Maugis-
Rabusseau
edgeR, plotrix, capushe, grDevices, graphics, stats
A Poisson mixture model is implemented to cluster genes from high-
throughput transcriptome sequencing (RNA-seq) data. Parameter estimation is
performed using either the EM or CEM algorithm, and the slope heuristics are
used for model selection (i.e., to choose the number of clusters).

This package implements a Poisson mixture model to cluster observations (e.g., genes) in high throughput sequencing data. Parameter estimation is performed using either the EM or CEM algorithm, and the slope heuristics are used for model selection (i.e., to choose the number of clusters).

Differential analysis of RNA-seq data with Poisson mixture
models
Andrea Rau, Marie-Laure Martin-Magniette, Cathy Maugis-Rabusseau
This package implements a Poisson mixture model to identify differentially expressed genes from RNA-seq data.

Differential Analysis of RNA-Seq Data with Poisson Mixture
Models

High Throughput Sequencing of Stable Isotope Probing Data
Analysis
c(
person("Nicholas", "Youngblut", email="nyoungb2@gmail.com", role=c("aut", "cre")),
person("Samuel", "Barnett", email="seb369@cornell.edu", role=c("ctb"))
)
Perform HTS-SIP analyses such as high resolution stable isotope probing (HR-SIP),
multi-window high resolution stable isotope probing (MW-HR-SIP), and quantitative stable
isotope probing (q-SIP). More information on HR-SIP, MW-HR-SIP, and q-SIP can be
found in:
1) Pepe-Ranney, Charles, Ashley N. Campbell, Chantal N. Koechli, Sean Berthrong, and
Daniel H. Buckley. 2016. "Unearthing the Ecology of Soil Microorganisms Using a
High Resolution DNA-SIP Approach to Explore Cellulose and Xylose Metabolism in
Soil." Terrestrial Microbiology, 703. <doi:10.3389/fmicb.2016.00703>
2) Youngblut, Nicholas D., and Daniel H. Buckley. "Evaluating the Accuracy of DNA
Stable Isotope Probing". in prep.
3) Hungate, Bruce A., Rebecca L. Mau, Egbert Schwartz, J. Gregory Caporaso,
Paul Dijkstra, Natasja van Gestel, Benjamin J. Koch, et al. 2015. "Quantitative
Microbial Ecology Through Stable Isotope Probing." Applied and Environmental
Microbiology, August, AEM.02280-15. <doi:10.1128/AEM.02280-15>
Nicholas Youngblut [aut, cre],
Samuel Barnett [ctb]