Table 4 Overall performance of the CNV detection tools using the gene-based comparison approach for real data
From: An evaluation of copy number variation detection tools for cancer using whole exome sequencing data
Method | ADTEx | CONTRA | cn.MOPS | ExomeCNV | VarScan2 |
|---|---|---|---|---|---|
Amplification | |||||
Sensitivity | 51.53% | 54.37% | 58.03% | 83.67% | 69.11% |
FDR | 33.70% | 53.52% | 57.36% | 38.79% | 26.87% |
SPC | 89.84% | 83.06 | 66.54% | 82.07 | 92.71% |
Deletion | |||||
Sensitivity | 50.14% | 64.95% | 52.81% | 82.94% | 76.77% |
FDR | 41.80% | 64.86% | 61.35% | 45.31% | 51.91% |
SPC | 94.18% | 78.86% | 78.08% | 87.26% | 82.52% |