pDriver: A novel method for unravelling personalised coding and miNRA cancer drivers

Vu VH Pham (1), Lin Liu (1), Cameron P Bracken (2,3), Gregory J Goodall (2,3), Thin Nguyen (4), Jiuyong Li (1), and Thuc D Le (1)
(1) School of Information Technology and Mathematical Sciences, University of South Australia, Mawson Lakes, SA 5095, Australia
(2) Centre for Cancer Biology, an alliance of SA Pathology and University of South Australia, Adelaide, SA 5000, Australia
(3) Department of Medicine, The University of Adelaide, Adelaide, SA 5005, Australia
(4) Applied Artificial Intelligence Institute, Deakin University, Australia

This repository includes the scripts and data of the proposed method.

The scripts are in the Script folder and include:
    (1) PersonalisedDriverFunctions.R - Developed functions used for our method
    (2) PersonalisedDriver-v20.Rmd - Main script for the method
    (3) PersonalisedDriver-v20.html - Main script for the method in html

The data are in the Data folder and include:
    (1) Input files
    (2) Output files for BRCA (in Output folder), LUAD (in LUAD folder), LUSC (in LUSC folder), KIRC (in KIRC folder), and HNSC (in HNSC folder)

Notes:
    (1) You might need to unzip hsa.zip file (TransmiR dataset for TF-miRNA interactions) before using it.
    (2) As the data files are large, we do not upload them here, you might need to download them from https://github.com/pvvhoang/pDriver/releases/tag/v1.0