This R-package implements the CSD algorithm presented by Voigt et al. 2017 in an efficient manner.

• Requrirements: Requirements: R (version 4.1.0 or higher) with packages WGCNA, optparse, glue, magrittr and Rcpp (and of course a C++ compiler) installed. Additionally, having an optimized Blas library such as openBlas is highly recommended for performance reasons (see this link for more info).

Installation

In order to install the release version from Bioconductor, do type in the R terminal:

if(!requireNamespace("BiocManager")){
install.packages("BiocManager")
}
BiocManager::install("phyloseq")

If you want to install the development version instead:

# install.packages("devtools")
devtools::install_github("AlmaasLab/csdR", ref = "main")