Differential Expression Analysis Using a Bottom-Up Model R package denoiSeq version 0.1.1 Given count data from two conditions, it determines which transcripts are differentially expressed across the two conditions using Bayesian inference of the parameters of a bottom-up model for PCR amplification. This model is developed in Ndifon Wilfred, Hilah Gal, Eric Shifrut, Rina Aharoni, Nissan Yissachar, Nir Waysbort, Shlomit Reich Zeliger, Ruth Arnon, and Nir Friedman (2012), <http://www.pnas.org/content/109/39/15865.full>, and results in a distribution for the counts that is a superposition of the binomial and negative binomial distribution. Software Imports: methods, stats, utils Suggests: knitr, rmarkdown Gershom Buri <buri@aims.edu.gh> Comprehensive R Archive Network (CRAN) Gershom Buri [aut, cre], Wilfred Ndifon [aut] GPL-2 2018-01-31 application/tgz https://CRAN.R-project.org/package=denoiSeq doi:10.32614/CRAN.package.denoiSeq