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sSeq

sSeq

sSeq is a tool for differential gene expression (DGE) analysis using RNA-seq data. The sSeq algorithm uses the Negative Binomial (NB) distribution, and a shrinkage technique, and outputs expression as counts.

Topic

Gene expression; RNA-Seq

Details

  • Operation: Danni Yu Differential gene expression analysis
  • Software interface: Command-line user interface; Library
  • Language: R
  • Operating system: Linux; Mac OS X; Microsoft Windows
  • License: GNU General Public License v>=3
  • Cost: Free
  • Version name: 1.1
  • Maturity: Stable
  • Credit: National Science Foundation (NSF).
  • Contact: dyu _at_ purdue.edu
  • Collection:

Publications

Yu D, Huber W, Vitek O "Shrinkage estimation of dispersion in Negative Binomial models for RNA-seq experiments with small sample size." Bioinformatics 2013; 29(10):1275-82 https://doi.org/10.1093/bioinformatics/btt143
PMID: 23589650
PMCID: PMC3654711


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