ATAXIC

An algorithm to quantify transcriptomic perturbation heterogeneity in single cancer cells.

Description

The package is used to calculate the transcriptomic perturbation heterogeneity score in single cancer cells based on the standard deviations of the absolute z-scored gene expression values for tens of thousands of genes.

Installation

You can install the released version of ATAXIC with:

if (!requireNamespace("devtools", quietly = TRUE))
    install.packages("devtools")
devtools::install_github("XS-Wang-Lab/ATAXIC/ATAXIC")

Examples

library(ATAXIC)
path <- system.file("extdata", "example_AXATIC.txt", package = "ATAXIC", mustWork = TRUE)
input_data_exp <- as.matrix(read.table(path, stringsAsFactors = FALSE, sep = "\t", header = TRUE, quote = "", row.names = 1))
ATAXIC(input_data_exp)