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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