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Table 1 Comparison of performance on LD decay using PopLDdecay and LDkit

From: LDkit: a parallel computing toolkit for linkage disequilibrium analysis

Population Chromosome Number of individuals Number of SNPs Peak memory (GB) Running time (Minute)
PopLDdecay LDkit PopLDdecay LDkit
CEU Chr22 183 1,103,547 9.87 10.33 2.15 10.36
CHS Chr22 171 1,103,547 9.1 10.12 2.03 11.11
ESN Chr22 173 1,103,547 9.36 10.25 2.09 10.88
GWD Chr22 180 1,103,547 9.74 10.45 2.11 10.01
IBS Chr22 162 1,103,547 9.2 10.03 2.01 10.93
All Chr22 2504 1,103,547 10.59 11 46.31 77.47