This is the development version of scMultiSim; for the stable release version, see scMultiSim.
Simulation of Multi-Modality Single Cell Data Guided By Gene Regulatory Networks and Cell-Cell InteractionsBioconductor version: Development (3.22)
scMultiSim simulates paired single cell RNA-seq, single cell ATAC-seq and RNA velocity data, while incorporating mechanisms of gene regulatory networks, chromatin accessibility and cell-cell interactions. It allows users to tune various parameters controlling the amount of each biological factor, variation of gene-expression levels, the influence of chromatin accessibility on RNA sequence data, and so on. It can be used to benchmark various computational methods for single cell multi-omics data, and to assist in experimental design of wet-lab experiments.
Author: Hechen Li [aut, cre] ORCID: 0000-0003-4907-429X , Xiuwei Zhang [aut], Ziqi Zhang [aut], Michael Squires [aut]
Maintainer: Hechen Li <hli691 at gatech.edu>
Citation (from within R, entercitation("scMultiSim")): 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("scMultiSim")
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("scMultiSim")Follow Installation instructions to use this package in your R session.
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