Table 1

Comparison of segment overlap counts between hzAnalyzer and PLINK homozygous segment/runs-of-homozygosity detection routines

Number of intersecting segments in other dataset


Dataset

Total segments

0

1

2

3-5

6-10

>10


hzAnalyzer

5,781

440

5,240

93

7

0

1

PLINK

8,040

30

5,059

1,777

1,108

66

0


Runs of homozygosity were detected using PLINK's default settings (ROH >1 Mb), and a corresponding set of homozygous segments with >1 Mb length selected from the complete hzAnalyzer dataset. The PLINK set was intersected with segments with ≥50 SNP/segment from the complete hzAnalyzer dataset, and the reverse intersection was performed between the hzAnalyzer (>1 Mb) and PLINK (>1 Mb) sets.

Johnson et al. Genome Biology 2011 12:R21   doi:10.1186/gb-2011-12-3-r21

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