Data

ROSMAP Data

  • ReadCounts.csv

  • H3K9acDomains.csv

The ROSMAP data can be obtained from Synapse. Read instructions for data access

UNC Wu Lab Data

  • snps.txt

  • JulyselGeneBySNP.1030.RData

  • mediator_chr#_new.RData (each chr has a separate RData file)

The UNC Wu Lab data requires permission from Dr. Di Wu

Setup

  1. Create an Rproject in Rstudio

  2. Install and load GeneticMediation from GitHub with:

# devtools::install_github("tydarnell/GeneticMediation")
library(GeneticMediation)
library(GeneticMediation)
  1. Create subdirectories of your Rproject directory: data, data/mediator, results with:
GeneticMediation::setup_folders()
  1. Put all data except for the mediator_chr#_new.RData files in the data folder

  2. Put the mediator_chr#_new.RData files in the mediator folder

  3. Check that data files are in the data folder with:

GeneticMediation::check_data()