Skip to main content

Table 2 Average imputation accuracy (r) of SNP and short insertions and deletions (indels) on chromosome 1 and 29

From: Consequences of splitting whole-genome sequencing effort over multiple breeds on imputation accuracy

 

Chromosome 1

Chromosome 29

 

SNP (1,069,830)

Indels (76,351)

SNP (405,507)

Indels (26,210)

Scenario

n

r

n

r

n

r

n

r

HOL20

630,092

0.71

42,324

0.56

238,473

0.60

14,323

0.47

MIX80

646,872

0.84

44,023

0.71

252,571

0.75

15,370

0.64

HOL80

646,796

0.88

44,027

0.76

252,439

0.81

15,374

0.70

MIX140

647,200

0.89

44,051

0.78

252,996

0.83

15,403

0.73