RnaSeqSampleSize
RnaSeqSampleSize
Bioconductor version: 3.23 · Package version: 2.22.0
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) |
| Downloads rank | 383 |
| Source branch | RELEASE_3_23 |
| biocViews | DifferentialExpression, ExperimentalDesign, GeneExpression, ImmunoOncology, RNASeq, Sequencing, Software |
Documentation
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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