RnaSeqSampleSize
RnaSeqSampleSize
Bioconductor version: 3.24 · Package version: 2.23.0
Other Bioconductor versions
devel is the development version; release is the current stable one.
3.24 (devel), 3.23 (release)
RnaSeqSampleSize package provides a sample size calculation method based on negative binomial model and the exact test for assessing differential expression analysis of RNA-seq data. It controls FDR for multiple testing and utilizes the average read count and dispersion distributions from real data to estimate a more reliable sample size. It is also equipped with several unique features, including estimation for interested genes or pathway, power curve visualization, and parameter optimization.
Installation
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("RnaSeqSampleSize")Details
| Maintainer | Shilin Zhao Developer <zhaoshilin@gmail.com> |
| Author | Shilin Zhao Developer [aut, cre], Chung-I Li [aut], Yan Guo [aut], Quanhu Sheng [aut], Yu Shyr [aut] |
| License | GPL (>= 2) |
| Source branch | devel |
| Build report | Bioconductor build system, r-universe |
| biocViews | DifferentialExpression, ExperimentalDesign, GeneExpression, ImmunoOncology, RNASeq, Sequencing, Software |
| Package Short Url | https://bioconductor.org/packages/RnaSeqSampleSize/ |
Citation
From within R, enter citation("RnaSeqSampleSize"):
Shilin Zhao Developer, Chung-I Li, Yan Guo, Quanhu Sheng, Yu Shyr. RnaSeqSampleSize: RnaSeqSampleSize. doi:10.18129/B9.bioc.RnaSeqSampleSize, R package version 2.23.0, https://bioconductor.org/packages/RnaSeqSampleSize.
Generated from the package metadata; it may differ from the package's own citation.
Documentation
Download
Follow the installation instructions to use this package in your R session.
| Source package | RnaSeqSampleSize_2.23.0.tar.gz |
| Windows binary (x86_64) | RnaSeqSampleSize_2.23.0.zip |
| macOS binary (arm64) | RnaSeqSampleSize_2.23.0.tgz |
| macOS binary (x86_64) | RnaSeqSampleSize_2.23.0.tgz |
Dependencies
Depends: R (>= 4.0.0), ggplot2, RnaSeqSampleSizeData
Imports: biomaRt, edgeR, heatmap3, matlab, KEGGREST, methods, grDevices, graphics, stats, Rcpp (>= 0.11.2), recount, ggpubr, SummarizedExperiment, tidyr, dplyr, tidyselect, utils
LinkingTo: Rcpp