Improving somatic variant identification through integration of genome and exome data

BMC Genomics

Table 1 The number of somatic variants called by four methods

Method	# of True positives^a	# of Somatic Variants^b	Sensitivity	Precision
MuTect	538	614	0.77	0.88
SomaticSniper	540	617	0.77	0.88
VarScan2	527	603	0.75	0.87
VCMM	548	399,491	0.78	0.0014

^aNumber of true positives, computed as the simple union of the number of variants called by each method out of the 700 simulated somatic variants for the two platform data
^bTotal number of somatic variants called by each method on the whole exome and whole genome datasets

ISSN: 1471-2164