Question: newbie: how to compare "sameness" of two samples using Illumina AB allele format data
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gravatar for scuffster
3 days ago by
scuffster0
scuffster0 wrote:

Hi,

I have existing data on diploid samples, their SNPs, and Illumina AB format values for each SNP. Given a new sample, I want to determine how closely it matches the genotype of any of my existing samples. I'd really appreciate anyone's thought on how to approach this. Is it a case of repeating the pairwise comparison of the given sample by aligning SNPs and seeing if the allele values match? Are there any python or R modules that it would be best for me to use for this?

Many thanks for your help - Derek

ADD COMMENTlink modified 4 hours ago by Kevin Blighe56k • written 3 days ago by scuffster0
0
gravatar for Kevin Blighe
4 hours ago by
Kevin Blighe56k
Kevin Blighe56k wrote:

You could just aim to do an identity-by-state analysis.

Kevin

ADD COMMENTlink written 4 hours ago by Kevin Blighe56k
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