Question: Negative and positive linkage disequilibrium
0
gravatar for fatima
2.2 years ago by
fatima10
fatima10 wrote:

Hello everyone,

Could you explain me what is exactly the meaning of Negative and positive LD which mentioned in Plink "-flip-scan"?

The result fo the "--flip-scan" is plink.fipscan and I have nan for all elements of R_NEG column. What is the problem for that?

Thank you.

ld plink gwas linkage • 1.1k views
ADD COMMENTlink modified 10 months ago by seta1.1k • written 2.2 years ago by fatima10
0
gravatar for seta
10 months ago by
seta1.1k
Sweden
seta1.1k wrote:

Although it's late, as far as I know, under linkage disequilibrium, haplotypes do not occur at the frequencies expected when the alleles were independent. Positive linkage disequilibrium exists when two alleles occur together on the same haplotype more often than expected, and negative LD exists when alleles occur together on the same haplotype less often than expected.

ADD COMMENTlink written 10 months ago by seta1.1k
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