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Implement heritability estimators #13

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shz9 opened this issue Sep 26, 2022 · 0 comments
Open
3 tasks

Implement heritability estimators #13

shz9 opened this issue Sep 26, 2022 · 0 comments
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enhancement New feature or request

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@shz9
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shz9 commented Sep 26, 2022

I'd like to provide implementation for summary statistics-based and individual-level data heritability estimators. This is important for many downstream models as well as for data interpretation.

Here are some popular heritability estimators that we can easily implement with the magenpy interfaces:

  • LD Score regression (ldsc). We already have a simple estimator implemented, but it would be nice to have a fully functional implementation that incorporates annotations, estimates standard errors, etc.
  • The GWASH estimator: This is an interesting estimator proposed by Schwartzman et al. a few years ago based on important work by Lee Dicker. The estimator seems simple enough to implement with the magenpy LD interfaces.
  • The Haseman-Elston heritability estimator based on individual-level data.

We may add other estimators down the line if there is interest.

@shz9 shz9 added the enhancement New feature or request label May 2, 2024
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