From: Bootstrap-based differential gene expression analysis for RNA-Seq data with and without replicates
Fold Change | Method | Accuracy % | Sensitivity % | PPV % | F-Score % |
---|---|---|---|---|---|
FishersTotal | 70.41% | 70.79% | 91.24% | 79.72% | |
FishersHousekeeping | 65.60% | 65.22% | 95.05% | 77.36% | |
1 | GFOLD | 78.13% | 80.06% | 92.67% | 85.90% |
Cuffdiff | 11.37% | 6.96% | 100.00% | 13.01% | |
edgeR | 73.03% | 73.26% | 95.56% | 82.94% | |
IsoDE-Match | 82.63% | 87.46% | 83.70% | 85.54% | |
IsoDE-All | 82.22% | 87.17% | 82.82% | 84.94% | |
FishersTotal | 74.05% | 78.20% | 84.85% | 81.39% | |
FishersHousekeeping | 76.68% | 73.61% | 93.67% | 82.44% | |
1.5 | GFOLD | 79.15% | 79.35% | 90.41% | 84.52% |
Cuffdiff | 28.43% | 8.60% | 100.00% | 15.85% | |
edgeR | 80.01% | 79.92% | 92.07% | 85.57% | |
IsoDE-Match | 78.98% | 86.23% | 84.62% | 85.42% | |
IsoDE-All | 79.01% | 86.42% | 84.49% | 85.44% | |
FishersTotal | 78.43% | 81.86% | 82.44% | 82.15% | |
FishersHousekeeping | 81.20% | 80.00% | 88.21% | 83.90% | |
2 | GFOLD | 82.94% | 78.84% | 92.37% | 85.07% |
Cuffdiff | 40.96% | 10.47% | 100.00% | 18.95% | |
edgeR | 83.67% | 81.63% | 91.17% | 86.13% | |
IsoDE-Match | 82.04% | 85.58% | 85.19% | 85.38% | |
IsoDE-All | 81.20% | 86.74% | 83.07% | 84.87% |