cytoKernel

Differential expression using kernel-based score test

Bioconductor version: 3.23 · Package version: 1.18.0

cytoKernel implements a kernel-based score test to identify differentially expressed features in high-dimensional biological experiments. This approach can be applied across many different high-dimensional biological data including gene expression data and dimensionally reduced cytometry-based marker expression data. In this R package, we implement functions that compute the feature-wise p values and their corresponding adjusted p values. Additionally, it also computes the feature-wise shrunk effect sizes and their corresponding shrunken effect size. Further, it calculates the percent of differentially expressed features and plots user-friendly heatmap of the top differentially expressed features on the rows and samples on the columns.

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

BiocManager::install("cytoKernel")