README.md

In Neurergus/MOSim: Multi-Omics Simulation (MOSim)

IMPORTANT: This software is now hosted in the ConesaLab github: https://github.com/ConesaLab/MOSim

For the latest version of the software as well as issues and questions, please head to the new site.

MOSim

MOSim is an R package for the simulation of multi-omic experiments that mimic regulatory mechanisms within the cell. Gene expression (RNA-seq count data) is the central data type simulated by MOSim, while the rest of available omic data types provide gene regulation information and include ATAC-seq (DNase-seq), ChIP-seq, small RNA-seq and Methyl-seq. In addition to these omics, regulation by transcription factors (TFs) can also be modeled.

Installation

MOSim is a Bioconductor R package, and we strongly recommend that it is installed from the Bioconductor repository. To install MOSim, open the R console and run:

``` if (!requireNamespace("BiocManager", quietly = TRUE)) install.packages("BiocManager")

BiocManager::install("MOSim") ```

The developer version can be installed from GitHub using the devtools R package:

install.packages("devtools") devtools::install_github("ConesaLab/MOSim")

Documentation

Vignettes and documentation can be accessed from MOSim's Bioconductor site, or by running the following line in the R console:

browseVignettes("MOSim")

Citation

If you used MOSim for your research, please cite:

• Martínez C, Monzó C, Conesa A, Tarazona S (2022). MOSim: Multi-Omics Simulation (MOSim). R package version 1.2.0, https://github.com/ConesaLab/MOSim.

Neurergus/MOSim documentation built on Feb. 23, 2024, 8:29 a.m.