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Table 1 Dataset attributes and the discordances of genotypes imputated by fastPHASE and BEAGLE softwares

From: imputeqc: an R package for assessing imputation quality of genotypes and optimizing imputation parameters

Population

Size

Chrom

SNPs

fastPHASE

BEAGLE

CEPH

60

7

28900

0.031 (0.004)

0.033 (0.003)

CEPH

60

22

13653

0.020 (0.001)

0.023 (0.001)

CEU, TSI, CHB, JPT

401

1

41524

0.0188 (0.0001)

0.020 (0.001)

CEU, TSI, CHB, JPT

401

22

7441

0.029 (0.001)

0.030 (0.001)

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BMC Bioinformatics

ISSN: 1471-2105

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