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Per Locus #12

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bschilder opened this issue Nov 13, 2019 · 2 comments
Closed

Per Locus #12

bschilder opened this issue Nov 13, 2019 · 2 comments

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@bschilder
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Kind of a random (and possibly dumb) question; does it make any sense to run LDSC on a single user-defined locus (e.g. a locus from a GWAS, that spans anywhere between 500 and 5000 bps)? Or does LDSC always require genome-wide data?
@omerwe
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omerwe commented Nov 14, 2019

Good question
Unfortunately LDSC requires genome-wide data. For a single locus it will return extremely noisy estimates (basically just noise), and the standard error estimates will also be wrong...

@omerwe omerwe closed this as completed Nov 14, 2019
@bschilder
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I see, that makes sense. Thanks!

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@omerwe @bschilder