Package: ssizeRNA 1.3.2

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")'.

Authors:Ran Bi [aut, cre], Peng Liu [aut], Tim Triche [ctb]

ssizeRNA_1.3.2.tar.gz
ssizeRNA_1.3.2.zip(r-4.5)ssizeRNA_1.3.2.zip(r-4.4)ssizeRNA_1.3.2.zip(r-4.3)
ssizeRNA_1.3.2.tgz(r-4.4-any)ssizeRNA_1.3.2.tgz(r-4.3-any)
ssizeRNA_1.3.2.tar.gz(r-4.5-noble)ssizeRNA_1.3.2.tar.gz(r-4.4-noble)
ssizeRNA_1.3.2.tgz(r-4.4-emscripten)ssizeRNA_1.3.2.tgz(r-4.3-emscripten)
ssizeRNA.pdf |ssizeRNA.html✨
ssizeRNA/json (API)

Peer review:

On CRAN:

This package does not link to any Github/Gitlab/R-forge repository. No issue tracker or development information is available.

5 exports 1 stars 1.38 score 41 dependencies 4 mentions 22 scripts 274 downloads

Last updated 5 years agofrom:cacf7c8416. Checks:OK: 5 NOTE: 2. Indexed: yes.

Exports:check.powersim.countsssize.twoSampVaryDeltassizeRNA_singlessizeRNA_vary

Dependencies:BiobaseBiocGenericsclicolorspaceedgeRfansifarverggplot2gluegtableisobandlabelinglatticelifecyclelimmalocfitmagrittrMASSMatrixmgcvmunsellnlmepillarpkgconfigplyrqvalueR6RColorBrewerRcppreshape2rlangscalesssize.fdrstatmodstringistringrtibbleutf8vctrsviridisLitewithr