ssizeRNA: Sample Size Calculation for RNA-Seq Experimental Design

We propose a procedure for sample size calculation while controlling false discovery rate for RNA-seq experimental design. Our procedure depends on the Voom method proposed for RNA-seq data analysis by Law et al. (2014) <doi:10.1186/gb-2014-15-2-r29> and the sample size calculation method proposed for microarray experiments by Liu and Hwang (2007) <doi:10.1093/bioinformatics/btl664>. We develop a set of functions that calculates appropriate sample sizes for two-sample t-test for RNA-seq experiments with fixed or varied set of parameters. The outputs also contain a plot of power versus sample size, a table of power at different sample sizes, and a table of critical test values at different sample sizes. To install this package, please use 'source("http://bioconductor.org/biocLite.R"); biocLite("ssizeRNA")'.

Version: 1.2.9
Depends: R (≥ 3.2.3)
Imports: MASS, Biobase, edgeR, limma, qvalue, ssize.fdr, graphics, stats
Suggests: knitr
Published: 2017-01-09
Author: Ran Bi [aut, cre], Peng Liu [aut], Tim Triche [ctb]
Maintainer: Ran Bi <biran at iastate.edu>
License: GPL-2 | GPL-3 [expanded from: GPL (≥ 2)]
NeedsCompilation: no
In views: ExperimentalDesign
CRAN checks: ssizeRNA results

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Reference manual: ssizeRNA.pdf
Vignettes: Sample Size Calculation for RNA-Seq Experimental Design
Package source: ssizeRNA_1.2.9.tar.gz
Windows binaries: r-devel: ssizeRNA_1.2.9.zip, r-release: ssizeRNA_1.2.9.zip, r-oldrel: ssizeRNA_1.2.9.zip
OS X Mavericks binaries: r-release: ssizeRNA_1.2.9.tgz, r-oldrel: ssizeRNA_1.2.9.tgz
Old sources: ssizeRNA archive

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