CombiningDependentPvaluesUsingEBM

Python, R and Matlab implementation of Brown's Method to combine dependent P-values

Author: William Poole (william.poole@systemsbiology.org)
Ported to Matlab: Theo Knijnenburg (tknijnen@systemsbiology.org)
Ported to R: David L Gibbs (dgibbs@systemsbiology.org)
Created: June 2015
Updated: February 2016
Copyright 2015, Institute for Systems Biology.
Licensed under the Apache License, Version 2.0

Python

The main script for combining P-values is EmpiricalBrownsMethod.py. To run some examples, set your working directory to [the Python folder in this repository] (../master/Python) and run WorkFlow.py (execfile('WorkFlow.py')).

R

The main script for combining P-values is ebm.R. To run some examples, set your working directory to [the R folder in this repository] (../master/R) and run WorkFlow.R (source('WorkFlow.R')).

Matlab

The main script for combining P-values is EmpiricalBrownsMethod.m. To run some examples, set your working directory to [the Matlab folder in this repository] (../master/Matlab) and run WorkFlow.m (WorkFlow.m).