Table 3

Comparison of SVseq2, Svseq1 and Pindel using real pooled data.

SVseq2(3)

SVseq2(4)

SVseq1

Pindel

F

SE

SO

F

SE

SO

F

SE

SO

F

SE

SO


CEU

108

43(40%)

72(67%)

39

26(67%)

36(92%)

258

48(19%)

99(38%)

30

19(63%)

25(83%)


YRI

195

77(39%)

133(68%)

84

55(65%)

68(81%)

131

54(41%)

101(77%)

112

38(34%)

77(69%)


SVseq2 is run with cutoff values 3 and 4. The cutoff value is 3 for SVseq1 and Pindel. F stands for "Findings", SE for "Supported by exact breakpoints" and SO for "Supported by overlap". Numbers in the parenthesis are accuracies.

Zhang et al. BMC Bioinformatics 2012 13(Suppl 6):S6   doi:10.1186/1471-2105-13-S6-S6

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