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3K RG 1M GWAS SNP Dataset available for download in SNP-Seek

posted Oct 23, 2017, 8:09 PM by Frances Nikki Borja ‎(IRRI)‎   [ updated Oct 23, 2017, 11:19 PM ]
    New LD pruned subset to try for GWAS is available as downloadable dataset in snp-seek. The data is based on the
Filtered SNP set (4.8M), a subset of Base SNP (18M). It was done with one round of LD pruning, r2 cutoff 0.8, window size
2kb and step 1 SNP, to remove only SNPs that are less than ~2kb apart. This leaves 1, 011, 601 snps.

    Visit our Bulk Download Page, scroll down and look for 3K RG 1M GWAS SNP Dataset, all chromosomes.