ChopSticks: High-resolution analysis of homozygous deletions by exploiting concordant read pairs

BMC Bioinformatics

Table 1 Results of SV detection obtained by BreakDancer, MoDIL, CLEVER, CNVnator, and Pindel

Results of deletion calls by BreakDancer, MoDIL, CLEVER, CNVnator, and Pindel. The values to the left of ”/” are the numbers of correct deletion calls, where a correct deletion call is the one that overlaps with exactly one true deletion, which, in turn, only overlaps with the deletion call; the values to the right of ”/” are the numbers of all deletion calls. BreakDancer and CLEVER results were good in both sensitivity and specificity. CNVnator generated numerous false positives, while Pindel suffered from low coverage. MoDIL missed lots of deletions.

ISSN: 1471-2105