| Pairs with true indels (2,754,313)a | Pairs with sequencing-error indels (2,934,043)a | ||
---|---|---|---|---|
Program | Accuracy, % | Accuracy on 685,937 pairs with boundary indels, %b | Accuracy, % | Accuracy on 695,771 pairs with boundary indels, %b |
TopHat2 + Bowtie1 | 69.8 | 16.3 | 14.0 | 3.1 |
TopHat2 + Bowtie2 | 62.3 | 24.0 | 60.8 | 19.8 |
GSNAP | 77.0 | 63.8 | 77.8 | 64.8 |
RUM | 60.3 | 34.3 | 61.3 | 36.0 |
MapSplice | 25.5 | 3.4 | 25.0 | 3.2 |
STAR | 53.4 | 19.2 | 54.9 | 21.4 |