Within group knockoff filter

biona001 / GhostKnockoffGWAS

Knockoff-based analysis of GWAS summary statistics data

MIT License

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Closed biona001 closed 9 months ago

biona001 commented 9 months ago

This PR implements preliminary code for within group knockoff filter, a desired featured noted in #1.

Knockoff discoveries are still based on the group-level W
But we do store and output the variant-level W
When making manhattan plots, all SNPs are plotted by their group-W, but we label a SNP based on the variant-level W. This could lead to interesting behavior where a SNP with larger group-level W has weaker variant-level W, as shown in step 5 of full example tutorial in the documentation

codecov-commenter commented 9 months ago

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