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Table 2 Validation of deletion callings from NA12878 data.

From: iSVP: an integrated structural variant calling pipeline from high-throughput sequencing data

Tool Called (≥50 bp) Mills (n= 79) Conrad (n= 351) Kidd (n= 58)
BD 5,014 13 158 49
Delly 286,289 13 168 51
Pindel 7,265 28 143 33
HC 1,880 4 0 0
iSVP 8,130 30 166 49
  1. The sensitivity of deletion calling for each tool was confirmed by comparing to multiple datasets from the literature (Mills [25], Conrad [23], and Kidd [24]). The n in parentheses shows the number of total validated deletions for each experiment. BD and HC stand for BreakDancer and Haplotype Caller, respectively.