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ssizeRNA  

Sample Size Calculation for RNA-Seq Experimental Design
View on CRAN: Click here


Download and install ssizeRNA package within the R console
Install from CRAN:
install.packages("ssizeRNA")

Install from Github:
library("remotes")
install_github("cran/ssizeRNA")

Install by package version:
library("remotes")
install_version("ssizeRNA", "1.3.2")



Attach the package and use:
library("ssizeRNA")
Maintained by
Ran Bi
[Scholar Profile | Author Map]
All associated links for this package
First Published: 2015-04-30
Latest Update: 2019-08-20
Description:
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")'.
How to cite:
Ran Bi (2015). ssizeRNA: Sample Size Calculation for RNA-Seq Experimental Design. R package version 1.3.2, https://cran.r-project.org/web/packages/ssizeRNA. Accessed 21 Nov. 2024.
Previous versions and publish date:
1.1.1 (2015-04-30 02:28), 1.1.2 (2015-05-12 08:01), 1.2.4 (2016-02-12 00:57), 1.2.6 (2016-07-15 10:16), 1.2.8 (2016-10-22 12:17), 1.2.9 (2017-01-09 10:00), 1.3.1 (2019-02-19 13:30)
Other packages that cited ssizeRNA R package
View ssizeRNA citation profile
Other R packages that ssizeRNA depends, imports, suggests or enhances
Complete documentation for ssizeRNA
Functions, R codes and Examples using the ssizeRNA R package
Some associated functions: check.power . hammer.eset . sim.counts . ssize.twoSampVaryDelta . ssizeRNA_single . ssizeRNA_vary . 
Some associated R codes: check.power.R . sim.counts.R . ssize.twoSampVaryDelta.R . ssizeRNA_single.R . ssizeRNA_vary.R .  Full ssizeRNA package functions and examples
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