0.1 Overview

OncoScore is a tool to measure the association of genes to cancer based on citation frequency in biomedical literature. The score is evaluated from PubMed literature by dynamically updatable web queries.

0.2 Installing OncoScore

The R version of OncoScore can be installed from Github. To do so, we need to install the R packages OncoScore depends on and the devtools package.

# install OncoScore dependencies
if (!requireNamespace("BiocManager", quietly = TRUE))
    install.packages("BiocManager")
BiocManager::install("biomaRt")

# install OncoScore library
if (!require("devtools")) install.packages("devtools")
library("devtools")
install_github("danro9685/OncoScore", ref = "master")

# load OncoScore library
library("OncoScore")

0.3 Debug

Please feel free to contact us if you have problems running our tool at .