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Implement IBD algorithm on Spark #15

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jtarraga opened this issue Dec 19, 2018 · 0 comments
Open

Implement IBD algorithm on Spark #15

jtarraga opened this issue Dec 19, 2018 · 0 comments
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spark-analysis New Spark analysis
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@jtarraga
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Identity-by-descent (IBD) is a good estimation to find pairs of individuals who look too similar to each other. IBD scores are computed from the identity-by-state (IBS) scores. Note that the IBS algorithm is already implemented in the oskar package.

IBD will be implemented as a Spark dataset transformer.

IBD implementation will be based-on PLINK, http://zzz.bwh.harvard.edu/plink/ibdibs.shtml#genome
PLINK package will be used to validate our results.

@jtarraga jtarraga added the spark-analysis New Spark analysis label Dec 19, 2018
@jtarraga jtarraga added this to the v1.0.0 milestone Dec 19, 2018
@jtarraga jtarraga self-assigned this Dec 19, 2018
jtarraga added a commit that referenced this issue Dec 19, 2018
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