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This is the development version of SimBu; for the stable release version, see SimBu.

Simulate Bulk RNA-seq Datasets from Single-Cell Datasets

Bioconductor version: Development (3.20)

SimBu can be used to simulate bulk RNA-seq datasets with known cell type fractions. You can either use your own single-cell study for the simulation or the sfaira database. Different pre-defined simulation scenarios exist, as are options to run custom simulations. Additionally, expression values can be adapted by adding an mRNA bias, which produces more biologically relevant simulations.

Author: Alexander Dietrich [aut, cre]

Maintainer: Alexander Dietrich <alex.dietrich at>

Citation (from within R, enter citation("SimBu")):


To install this package, start R (version "4.4") and enter:

if (!require("BiocManager", quietly = TRUE))

# The following initializes usage of Bioc devel


For older versions of R, please refer to the appropriate Bioconductor release.


To view documentation for the version of this package installed in your system, start R and enter:

Getting started HTML R Script
Inputs and Outputs HTML R Script
Introducing mRNA bias into simulations with scaling factors HTML R Script
Public Data Integration using Sfaira HTML R Script
Reference Manual PDF


biocViews RNASeq, SingleCell, Software
Version 1.7.0
In Bioconductor since BioC 3.16 (R-4.2) (1.5 years)
License GPL-3 + file LICENSE
Imports basilisk, BiocParallel, data.table, dplyr, ggplot2, tools, Matrix (>= 1.3.3), methods, phyloseq, proxyC, RColorBrewer, RCurl, reticulate, sparseMatrixStats, SummarizedExperiment, tidyr
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Suggests curl, knitr, matrixStats, rmarkdown, Seurat (>= 5.0.0), SeuratObject (>= 5.0.0), testthat (>= 3.0.0)
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Follow Installation instructions to use this package in your R session.

Source Package SimBu_1.7.0.tar.gz
Windows Binary (64-bit only)
macOS Binary (x86_64) SimBu_1.7.0.tgz
macOS Binary (arm64) SimBu_1.7.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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