Question: Identity-By-Descent Calculation In Wgs Data
2
gravatar for Sean Davis
6.8 years ago by
Sean Davis25k
National Institutes of Health, Bethesda, MD
Sean Davis25k wrote:

What are the approaches folks are using for IBD calculation in whole genome data from extended families (4-generations)? Has anyone tried using the typical linkage-like software like merlin or genehunter?

sequencing • 1.8k views
ADD COMMENTlink modified 11 months ago by Wei-Min Chen0 • written 6.8 years ago by Sean Davis25k

Thanks, Zev, for the answer below. This is a good resource, but solves a slightly different problem than what I had in mind. We have the pedigree structure and the genotype data and want to infer the IBD states of all individuals in the pedigree (so that we can perform non-parametric linkage analysis, basically).

ADD REPLYlink written 6.8 years ago by Sean Davis25k
2
gravatar for Zev.Kronenberg
6.8 years ago by
United States
Zev.Kronenberg11k wrote:

We like the ERSA tool from the Jorde lab:

http://jorde-lab.genetics.utah.edu/ersa/

http://jorde-lab.genetics.utah.edu/ersa/ERSA_distr_1.0/

ADD COMMENTlink written 6.8 years ago by Zev.Kronenberg11k
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