cacoa

Case-Control Analysis of scRNA-seq experiments

Installation

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.