CS-CORE is a R package for cell-type-specific co-expression inference from single cell RNA-sequencing data. It provides an implementation for the statistical method CS-CORE proposed in this paper.
CS-CORE is available on GitHub. You can install it using
## Load devtools for installing R packages from Github
library(devtools)
## Install CS-CORE from Github
install_github("ChangSuBiostats/CS-CORE")The vignette shows an example of using CS-CORE for cell-type-specific co-expression analysis with single cell RNA-sequencing data, which includes inferring co-expressions, extracting co-expressed gene modules and functional enrichment analysis as performed in our manuscript.
Cell-type-specific co-expression inference from single cell RNA-sequencing data. Su, Chang, et al. "Cell-type-specific co-expression inference from single cell RNA-sequencing data." Nature Communications 14.1 (2023): 4846.
A Python implementation of CS-CORE is also provided here.