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KINference-Evaluation-Scripts

This repository contains all the necessary code for the evaluation of KINference: Data-driven inference of kinase interaction networks.

Installation instruction

Install with:

devtools::install_github('bionetslab/KINference')

Recreation of analysis and figures

  1. All scripts to recreate the results can be found in the folder manuscript_scripts
  2. All scripts to recreate the plots can be found in the folder plotting_scripts

NOTE: You have to run every code from the main repo directory! For example:

Rscript manuscript_scripts/Bouhaddou_run.R

You have to download the gene2pubmed and gene2ensemble file from https://ftp.ncbi.nih.gov/gene/DATA/ for the literaturbias_analysis.R script.