scPower

scPower is a R package for design and power analysis of cell type specific interindividual differential gene expression (DE) and expression quantitative trait locus (eQTL) studies using single cell RNA-seq. It enables the user to calculate the power for a given experimental setup and to choose for a restricted budget the optimal combination of experimental parameters which maximizes the power. Necessary experimental priors, e.g. effect sizes and expression distributions, can be taken from example data sets, saved in the package, or estimated from new data sets. The tool was evaluated with data from different tissues and single cell technologies, based on UMI counts and read counts.

The R package can be installed from github.

The calculation can be performed in the R shell or using a graphical interface of a shiny app (locally) or at our webpage scPower.

A detailed description of all methods and citation of all used tools and data sets can be found in the associated paper:

Schmid, K. T., Höllbacher, B., Cruceanu, C., Boettcher, A., Lickert, H., Binder, E. B., Theis, F. J., & Heinig, M. (2021). scPower accelerates and optimizes the design of multi-sample single cell transcriptomic studies. Nature Communications. https://doi.org/10.1038/s41467-021-26779-7