MCPcounter
This repository hosts the source code corresponding to the method described in our 2016 paper published in Genome Biology, Estimating the population abundance of tissue-infiltrating immune and stromal cell populations using gene expression
To install it, the easiest is to use the R package devtools and its function install_github. To do so, open an R session and enter
install.packages(c("devtools","curl")) ##Installs devtools and the MCPcounter dependancy 'curl'
library(devtools)
install_github("ebecht/MCPcounter",ref="master", subdir="Source")
Examples on how to run the algorithm on your data are shown in the documentation ?MCPcounter.estimate
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Reviews
3
(1)
user_rmDE96mV
2025-04-17
I have been using MCPcounter for my research and it has significantly improved my workflow. The tool is efficient for quantifying the abundance of various immune and stromal cell populations in heterogeneous tissues using transcriptomic data. It's user-friendly, well-documented, and continually updated by its author, ebecht. Highly recommend it to anyone in the field of bioinformatics or immunology. Check it out on GitHub!