mnnsim

mnnsim 1.0.0

mnnsim (Mutual Nearest Neighbor Simulation) implements a simulation to compare the quality of various batch correction methods for single-cell data.

Installation

You can install the most recent updates of mnnsim from github with:

if("mnnsim" %in% rownames(installed.packages()) == FALSE) {
    if("devtools" %in% rownames(installed.packages()) == FALSE) 
        install.packages("devtools")
    
    devtools::install_github('jlakkis/mnnsim')
}

Reference

For a detailed walkthrough of this package, please check out this vignette. For a quantitative assessment of the benefits of parallelizing this simulation, check out the parallel code script.