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Table 1 R 2 +/- standard deviation across replicates between inferred and true results, and percentage of assigned results using simulated data (dataset B)

From: Detection of recombination events, haplotype reconstruction and imputation of sires using half-sib SNP genotypes

 

Half-sib family size

 

4

6

8

10

20

40

1250 SNPs

PS

0. 55 ± 0. 37

0. 65 ± 0. 29

0. 68 ± 0. 27

0. 77 ± 0. 17

0. 84 ± 0. 07

0. 84 ± 0. 04

PS%

0. 94 ± 0. 13

0. 96 ± 0. 04

0. 97 ± 0. 02

0. 97 ± 0. 03

0. 97 ± 0. 03

0. 98 ± 0. 02

PSe

0. 52 ± 0. 36

0. 64 ± 0. 29

0. 66 ± 0. 27

0. 75 ± 0. 17

0. 83 ± 0. 07

0. 83 ± 0. 04

PSe%

0. 96 ± 0. 06

0. 96 ± 0. 04

0. 97 ± 0. 02

0. 97 ± 0. 03

0. 98 ± 0. 03

0. 98 ± 0. 02

SI

0. 74 ± 0. 25

0. 81 ± 0. 18

0. 84 ± 0. 17

0. 90 ± 0. 11

0. 97 ± 0. 03

0. 99 ± 0. 00

SI%

0. 51 ± 0. 09

0. 71 ± 0. 06

0. 82 ± 0. 05

0. 88 ± 0. 03

0. 98 ± 0. 02

1. 00 ± 0. 00

SIe

0. 72 ± 0. 23

0. 80 ± 0. 18

0. 82 ± 0. 18

0. 89 ± 0. 11

0. 97 ± 0. 03

0. 99 ± 0. 01

SIe%

0. 53 ± 0. 06

0. 71 ± 0. 06

0. 82 ± 0. 05

0. 89 ± 0. 03

0. 98 ± 0. 02

1. 00 ± 0. 00

5000 SNPs

PS

0. 55 ± 0. 36

0. 74 ± 0. 32

0. 86 ± 0. 19

0. 91 ± 0. 07

0. 93 ± 0. 03

0. 94 ± 0. 02

PS%

0. 95 ± 0. 10

0. 97 ± 0. 03

0. 98 ± 0. 03

0. 98 ± 0. 02

0. 98 ± 0. 02

0. 98 ± 0. 02

PSe

0. 56 ± 0. 36

0. 74 ± 0. 33

0. 87 ± 0. 22

0. 92 ± 0. 12

0. 95 ± 0. 04

0. 95 ± 0. 02

PSe%

0. 98 ± 0. 03

0. 98 ± 0. 02

0. 99 ± 0. 02

0. 99 ± 0. 02

0. 99 ± 0. 02

0. 99 ± 0. 01

SI

0. 74 ± 0. 23

0. 86 ± 0. 20

0. 93 ± 0. 12

0. 97 ± 0. 04

0. 99 ± 0. 01

1. 00 ± 0. 00

SI%

0. 50 ± 0. 07

0. 70 ± 0. 07

0. 81 ± 0. 05

0. 88 ± 0. 04

0. 98 ± 0. 01

1. 00 ± 0. 00

SIe

0. 71 ± 0. 22

0. 83 ± 0. 20

0. 91 ± 0. 13

0. 95 ± 0. 05

0. 99 ± 0. 01

1. 00 ± 0. 00

SIe%

0. 51 ± 0. 04

0. 70 ± 0. 07

0. 81 ± 0. 05

0. 88 ± 0. 04

0. 98 ± 0. 01

1. 00 ± 0. 00

10 000 SNPs

PS

0. 58 ± 0. 38

0. 77 ± 0. 32

0. 90 ± 0. 19

0. 93 ± 0. 10

0. 96 ± 0. 03

0. 96 ± 0. 02

PS%

0. 95 ± 0. 13

0. 98 ± 0. 02

0. 99 ± 0. 02

0. 99 ± 0. 02

0. 99 ± 0. 02

0. 99 ± 0. 01

PSe

0. 48 ± 0. 36

0. 71 ± 0. 33

0. 84 ± 0. 21

0. 90 ± 0. 09

0. 92 ± 0. 04

0. 92 ± 0. 04

PSe%

0. 97 ± 0. 04

0. 98 ± 0. 03

0. 98 ± 0. 03

0. 98 ± 0. 02

0. 98 ± 0. 02

0. 98 ± 0. 02

SI

0. 75 ± 0. 25

0. 87 ± 0. 20

0. 95 ± 0. 11

0. 97 ± 0. 06

1. 00 ± 0. 01

1. 00 ± 0. 00

SI%

0. 50 ± 0. 09

0. 69 ± 0. 06

0. 80 ± 0. 06

0. 88 ± 0. 06

0. 99 ± 0. 01

1. 00 ± 0. 00

SIe

0. 75 ± 0. 22

0. 85 ± 0. 20

0. 93 ± 0. 12

0. 96 ± 0. 06

0. 99 ± 0. 01

1. 00 ± 0. 00

SIe%

0. 52 ± 0. 06

0. 69 ± 0. 06

0. 80 ± 0. 05

0. 88 ± 0. 05

0. 99 ± 0. 01

1. 00 ± 0. 00

  1. 120 half-sib families with varying numbers of offspring per family (between 4 and 40) and different SNP marker densities were used; PS: paternal strand detection; PS%: percentage of markers assigned to paternal strands; PSe: paternal strand detection with 1% genotyping error; PSe%: percentage of markers assigned to paternal strands with 1% genotyping error; SI: sire genotype imputation, SI%: percentage of sire markers imputed; SIe: sire genotype imputation with 1% genotyping error, SIe%: percentage of sire markers imputed with 1% genotyping error.
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Genetics Selection Evolution

ISSN: 1297-9686