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This commit was created on GitHub.com and signed with GitHub’s verified signature.
Changes
Remove bundled plink, plink2 and bgenix files. Instead, download only if needed.
Add more consistent progress updates for make_dragen_bed() and make_imputed_bed()
Add "progress" options to extract_variants() and create_pgs() (default is FALSE). Default is TRUE if you directly call make_dragen_bed() or make_imputed_bed()
Bug fixes
Fix make_dragen_bed() so it doesn't crash if the pVCF subset is empty (i.e., a searched-for chr:pos was missing)