LD r² Threshold — Glossary
LD r² Threshold
Parameterld_r2
Definition
Pairwise correlation cutoff used during LD pruning. SNP pairs above this r² are reduced to a single representative.
Examples
0.8 (moderate), 0.5 (aggressive).
ld_r2
Pairwise correlation cutoff used during LD pruning. SNP pairs above this r² are reduced to a single representative.
0.8 (moderate), 0.5 (aggressive).