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")'. For R version 3.5 or greater, please use 'if(!requireNamespace("BiocManager", quietly = TRUE)){install.packages("BiocManager")}; BiocManager::install("ssizeRNA")'.

Package details

AuthorRan Bi [aut, cre], Peng Liu [aut], Tim Triche [ctb]
Bioconductor views DNASeq DifferentialExpression ExperimentalDesign GeneExpression Microarray RNASeq Sequencing
MaintainerRan Bi <[email protected]>
LicenseGPL (>= 2)
Version1.3.2
Package repositoryView on CRAN
Installation Install the latest version of this package by entering the following in R:
install.packages("ssizeRNA")

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ssizeRNA documentation built on Aug. 20, 2019, 5:22 p.m.