Case-Control Analysis of scRNA-seq experiments
Prior to installing the package, dependencies have to be installed:
BiocManager::install(c("clusterProfiler", "DESeq2", "DOSE", "EnhancedVolcano", "enrichplot", "fabia", "GOfuncR", "Rgraphviz"))Also make sure to install the latest version of sccore (not the one from CRAN):
devtools::install_github("kharchenkolab/sccore", ref="dev")And if you're going to use Conos as a data object, the latest version is also recommended:
devtools::install_github("kharchenkolab/conos", ref="dev")To install the package use:
devtools::install_github("kharchenkolab/cacoa")See the vignette for an example.