simulate baseline-LD genetic architecture

KangchengHou / admix-kit

Toolkit for analyzing genetics data from admixed populations

https://kangchenghou.github.io/admix-kit

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simulate baseline-LD genetic architecture #6

Closed KangchengHou closed 2 years ago

KangchengHou commented 3 years ago

Paper described in https://www.nature.com/articles/ng.3954 Annotation files in https://alkesgroup.broadinstitute.org/LDSCORE/baselineLD_v1.1_hg38_annots/ Effect sizes meta-analyzed across traits: https://static-content.springer.com/esm/art%3A10.1038%2Fng.3954/MediaObjects/41588_2017_BFng3954_MOESM3_ESM.xlsx (S8c) use Tau

KangchengHou commented 2 years ago

Closing this because it is not straightforward to work with SNP set mismatch, as it is not clear how to impute the missing annotation values in the baseline-LD