This is the development version of SPsimSeq; for the stable release version, see SPsimSeq.
Semi-parametric simulation tool for bulk and single-cell RNA sequencing dataBioconductor version: Development (3.22)
SPsimSeq uses a specially designed exponential family for density estimation to constructs the distribution of gene expression levels from a given real RNA sequencing data (single-cell or bulk), and subsequently simulates a new dataset from the estimated marginal distributions using Gaussian-copulas to retain the dependence between genes. It allows simulation of multiple groups and batches with any required sample size and library size.
Author: Alemu Takele Assefa [aut], Olivier Thas [ths], Joris Meys [cre], Stijn Hawinkel [aut]
Maintainer: Joris Meys <Joris.Meys at ugent.be>
Citation (from within R, entercitation("SPsimSeq")): Installation
To install this package, start R (version "4.5") and enter:
if (!require("BiocManager", quietly = TRUE))
install.packages("BiocManager")
# The following initializes usage of Bioc devel
BiocManager::install(version='devel')
BiocManager::install("SPsimSeq")
For older versions of R, please refer to the appropriate Bioconductor release.
DocumentationTo view documentation for the version of this package installed in your system, start R and enter:
browseVignettes("SPsimSeq")Follow Installation instructions to use this package in your R session.
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