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dyngen: a multi-modal simulator for spearheading new single-cell omics analyses

By Robrecht Cannoodt, Wouter Saelens, Louise Deconinck, Yvan Saeys

Posted 06 Feb 2020
bioRxiv DOI: 10.1101/2020.02.06.936971

Purpose When developing new types of tools for single-cell analyses, there is often a lack of datasets on which to quantitatively assess the performance. Results We developed dyngen, a multi-modality simulator of single cells. In dyngen, the biomolecular state of an in silico changes over time according to a predefined gene regulatory network. We used dyngen to benchmark three emerging ways of analysing single-cell data: RNA velocity, cell-specific network inference and trajectory alignment methods. Conclusion dyngen lays the foundations for benchmarking a wide variety of computational single-cell tools and can be used to help kick-start the development of future types of analyses.

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