Skip to main content

Table 4 Illumina-only method comparison

From: Assessing structural variation in a personal genome—towards a human reference diploid genome

Program

Total called

Supported

Unsupported

FDR

Sensitivity

CNVnator

6,197

1,211

4,986

80.46%

22.62%

BreakDancer

5,520

2,269

3,251

58.89%

42.39%

Delly

3,720

1,669

2,051

55.13%

31.18%

Crest

2,219

1,889

330

14.87%

35.29%

Pindel

4,451

3,035

1,416

31.81%

56.70%

SV-STAT

892

876

16

1.79%

16.36%

Tiresias

1,347

417

930

69.04%

7.79%

Spiral

1,881

1,824

57

3.03%

34.07%

Parliament

3,082

2,852

258

8.37%

57.34%

  1. Performance for each Illumina-only method is summarized. Supported and Unsupported columns indicate the number of calls with and without local hybrid assembly support, respectively. False discovery rate (FDR) and sensitivity are calculated using all 17,704 Illumina Only reference inconsistent loci and the subset of 5,584 that are supported by hybrid assembly.
Back to article page

BMC Genomics

ISSN: 1471-2164

Contact us