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Simulate Bulk RNA-seq Datasets from Single-Cell Datasets

Bioconductor version: Release (3.19)

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))


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 1.6.0
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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Package Archives

Follow Installation instructions to use this package in your R session.

Source Package SimBu_1.6.0.tar.gz
Windows Binary
macOS Binary (x86_64) SimBu_1.6.0.tgz
macOS Binary (arm64) SimBu_1.6.0.tgz
Source Repository git clone
Source Repository (Developer Access) git clone
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Old Source Packages for BioC 3.19 Source Archive