Average odds ratio per linkage disequilibrium or haplotype block?
0
0
Entering edit mode
4.1 years ago
Peixe ▴ 660

Hi,

I have genotypes & summary statistics for a GWAS. Through PLINK, (which uses Haploview algorithm, Gabriel S, 2002) I have generated haplotype blocks in my data. To generate larger blocks I gave the algorithm a somewhat "relaxed" threshold, so that not all SNPs inside blocks are in perfect LD.

The question is:

Is there any procedure to assign each of these blocks a sort of "average" odds ratio, in a way that at the end each block has a single value of effect size assigned, derived from a weighted average (or similar) of all the SNPs within each block?

Not sure if this is something that has been tried before...

Any help appreciated!

Thanks!

SNP linkage disequilibrium GWAS • 632 views
ADD COMMENT

Login before adding your answer.

Traffic: 1985 users visited in the last hour
Help About
FAQ
Access RSS
API
Stats

Use of this site constitutes acceptance of our User Agreement and Privacy Policy.

Powered by the version 2.3.6