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")'.
| Version: |
1.3.2 |
| Depends: |
R (≥ 3.2.3) |
| Imports: |
MASS, Biobase, edgeR, limma, qvalue, ssize.fdr, graphics, stats |
| Suggests: |
knitr |
| Published: |
2019-08-20 |
| Author: |
Ran Bi [aut, cre],
Peng Liu [aut],
Tim Triche [ctb] |
| Maintainer: |
Ran Bi <biranpier at gmail.com> |
| License: |
GPL-2 | GPL-3 [expanded from: GPL (≥ 2)] |
| NeedsCompilation: |
no |
| In views: |
ExperimentalDesign |
| CRAN checks: |
ssizeRNA results |
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