This package is a stripped-down version of the Citrus package, which removes all the clustering and GUI code, and focuses exclusively on model building

It can be used to build models that associate features from single-cell data (e.g. the abundance of a specific cluster or gated cell population) to a clinical endpoint of interest (e.g. response to therapy)

The original reference for Citrus is

Robert V Bruggner, Bernd Bodenmiller, David L Dill, Robert J Tibshirani, Garry P Nolan
Automated identification of stratifying signatures in cellular subpopulations
Proc Natl Acad Sci U S A. 2014 Jul 1;111(26):E2770-7. doi: 10.1073/pnas.1408792111. Epub 2014 Jun 16.

Installation

To install kumquat first intall the Bioconductor impute package

if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")

BiocManager::install("impute")

and then install kumquat using the devtools package as follows

devtools::install_github("ParkerICI/kumquat")