files

File	Description
CpG.sh	to generate CpG.txt from map.csv indicating CpG ID, chromosome, position
1KG.sh	to generate binary pedigree data from 1KG-imputed data
covar.do	to set up FUSION.covar
simple.R	to set up FUSION.pheno

CpG.sh also generates the following files,

• CpG.snps.txt - CpG - SNP correspondence
• CpG.snps.dta - Stata version
• CpG.list - CpG which contains SNPs

The following files were useful during development.

• Axiom.sh - to generate binary pedigree data from Axiom chip
• pheno.R - to generate FUSION.pheno
• pheno.do - to generate FUSION.pheno
• CpG.do - to produce SNP list per CpG

The major consideration not to use them is the computing resources they need.