FUNscore

The goal of FUNscore is to evaluate functional score of tumor cells/tissue using scRNA or bulk transcriptomic data.

Installation

You can install the development version of FUNscore from GitHub with:

# install.packages("devtools")
devtools::install_github("BioInfoNote/FUNscore")

Example

library(FUNscore)
data("expr")
data("funRelatedGeneSet")

##View functional gene signatures
names(funRelatedGeneSet)

fungeneset = funRelatedGeneSet[["Angiogenesis"]]@geneIds
cfs <- calFUNscore(expr = expr, fungeneset = fungeneset, study.type = "bulk_RNAseq")