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Table 4 Number of sites from each candidate call set that have k = 3 L1 Classification scores in each range, where the score is the proportion ρ of random sites that are closer to the center than each candidate site. These numbers are after filtering sites for which the flanking regions have low mapping quality or high coverage

From: svclassify: a method to establish benchmark structural variant calls

 

Filtered

<0.68

0.68-0.9

0.9-0.97

0.97-0.99

0.99-0.997

0.997-0.999

>0.999

Random Personalis

229

3025

501

177

65

3

0

0

Personalis Gold

106

8

10

44

414

409

1302

13

Personalis Validated

3

0

0

0

10

7

19

0

Personalis Non-validated

0

1

0

0

3

0

1

0

1000 Genomes

382

56

103

257

714

388

780

5

Spiral Gen Insertions

1

0

0

0

12

16

41

0

Deduplicated Deletions

195

45

61

145

675

513

1434

14