reference samples

Hi Jian and all,

Thanks for making this great tool!

I am trying to run conditional analysis with only summary statistics by using the --cojo modality of GCTA. However, I am still struggling in getting PLINK files of the reference samples. Where can I get genotype files of a GWAS with more than 4000 samples? Jian recommended the Wood et al 2014 paper, which presumably released their genotype data in dbGap. With this, looks like I have to go through the dbGap download, and Plink converting process? And there is no place to get reference the PLINK files easily?

Also, since the reference samples were only used to compute LD, does GCTA consider accepting LD matrix as input?

Thanks, 

Xulong