POWSC
This package is for version 3.13 of Bioconductor; for the stable, up-to-date release version, see POWSC.
Simulation, power evaluation, and sample size recommendation for single cell RNA-seq
Bioconductor version: 3.13
Determining the sample size for adequate power to detect statistical significance is a crucial step at the design stage for high-throughput experiments. Even though a number of methods and tools are available for sample size calculation for microarray and RNA-seq in the context of differential expression (DE), this topic in the field of single-cell RNA sequencing is understudied. Moreover, the unique data characteristics present in scRNA-seq such as sparsity and heterogeneity increase the challenge. We propose POWSC, a simulation-based method, to provide power evaluation and sample size recommendation for single-cell RNA sequencing DE analysis. POWSC consists of a data simulator that creates realistic expression data, and a power assessor that provides a comprehensive evaluation and visualization of the power and sample size relationship.
Author: Kenong Su [aut, cre], Hao Wu [aut]
Maintainer: Kenong Su <kenong.su at emory.edu>
citation("POWSC")):
Installation
To install this package, start R (version "4.1") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
BiocManager::install("POWSC")
For older versions of R, please refer to the appropriate Bioconductor release.
Documentation
To view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("POWSC")| The POWSC User's Guide | HTML | R Script |
| Reference Manual | ||
| NEWS | Text |
Details
| biocViews | DifferentialExpression, ImmunoOncology, SingleCell, Software |
| Version | 1.0.0 |
| In Bioconductor since | BioC 3.13 (R-4.1) (3 years) |
| License | GPL-2 |
| Depends | R (>= 4.1), Biobase, SingleCellExperiment, MAST |
| Imports | pheatmap, ggplot2, RColorBrewer, grDevices, SummarizedExperiment, limma |
| System Requirements | |
| URL |
See More
| Suggests | rmarkdown, knitr, testthat (>= 3.0.0), BiocStyle |
| Linking To | |
| Enhances | |
| Depends On Me | |
| Imports Me | |
| Suggests Me | |
| Links To Me | |
| Build Report | Build Report |
Package Archives
Follow Installation instructions to use this package in your R session.
| Source Package | POWSC_1.0.0.tar.gz |
| Windows Binary | POWSC_1.0.0.zip (32- & 64-bit) |
| macOS 10.13 (High Sierra) | POWSC_1.0.0.tgz |
| Source Repository | git clone https://git.bioconductor.org/packages/POWSC |
| Source Repository (Developer Access) | git clone git@git.bioconductor.org:packages/POWSC |
| Bioc Package Browser | https://code.bioconductor.org/browse/POWSC/ |
| Package Short Url | https://bioconductor.org/packages/POWSC/ |
| Package Downloads Report | Download Stats |
| Old Source Packages for BioC 3.13 | Source Archive |