Figure 4.

Simulated Venter chromosome 17. ROC curves comparing deletion predictions for Breakdancer, GASV, GASVPro-HQ, Hydra-HQ, CNVer, GASVPro and Hydra to the 124 deletions from Venter chromosome 17 with minimum deletion length 125 bp. All methods analyzed the same set of high-quality unique mappings; in addition, GASVPro and Hydra considered a set of lower-quality alignments, including ambiguous fragments with multiple alignments. Predictions of all methods were post-processed in an identical fashion and the resulting predictions were compared to the known coordinates for the Venter deletions according to the double uncertainty metric (see Methods).