Investigation of single cell modes

This repository (and accompanying repository singlecell-modes) contains code accompanying the manuscript:

Sarkar, A. and Stephens, M. ”Separating measurement and expression models clarifies confusion in single-cell RNA sequencing analysis.” Nature Genetics (2021).

To install the package under conda:

conda install -c aksarkar scmodes

To install the package under pip:

pip install git+https://www.github.com/aksarkar/scmodes.git#egg=scmodes

The package includes optional dependencies on the R packages ashr and DESCEND. We have provided conda packages for these dependencies:

conda install -c aksarkar r-ashr r-descend