The EWCE R package is designed to facilitate expression weighted cell type enrichment analysis as described in our Frontiers in Neuroscience paper1. EWCE can be applied to any gene list.
Using EWCE essentially involves two steps:
ewceData (which comes with EWCE).
Bioconductor>=3.14. To install EWCE on Bioconductor run:
NOTE: This documentation is for the development version of
EWCE. See Bioconductor for documentation on the current release version.
Additional tutorials of various EWCE features, including how to:
Major upgrades to EWCE were made in version 1.3.1. Please see the NEWS page for more details.
If you have any problems, please do submit an Issue here on GitHub with a reproducible example.
If you use
EWCE, please cite:
Nathan G. Skene, Seth G. N. Grant (2016) Identification of Vulnerable Cell Types in Major Brain Disorders Using Single Cell Transcriptomes and Expression Weighted Cell Type Enrichment, Frontiers in Neuroscience; 10, https://doi.org/10.3389/fnins.2016.00016
If you use the cortex/hippocampus single-cell data associated EWCE/ewceData this package then please cite the following: