Table 3.
Performance on datasets with five repeat copy numbers (1000 reads for each copy number, error rate is 15%, error distribution is 37:42:21, repeat pattern size is 1000 bp)
| Copy number | Tool | Accuracy (%) | Ave. copy number | Ave. identical base | Run time (CPU min) |
|---|---|---|---|---|---|
| TideHunter | 0.2 | 2.0 | 814.5 | 0.02 | |
| 2 | INC-seq | 0.0 | 0.0 | 0.0 | 18.0 |
| TRF | 0.1 | 1.9 | 902.0 | 0.05 | |
| TideHunter | 89.3 | 2.9 | 887.9 | 0.1 | |
| 3 | INC-seq | 97.3 | 2.0 | 876.7 | 26.5 |
| TRF | 7.6 | 2.3 | 908.6 | 0.2 | |
| TideHunter | 100.0 | 4.8 | 952.5 | 0.3 | |
| 5 | INC-seq | 99.2 | 3.8 | 934.1 | 47.1 |
| TRF | 31.1 | 3.8 | 916.2 | 0.8 | |
| TideHunter | 99.9 | 9.5 | 988.2 | 0.9 | |
| 10 | INC-seq | 100.0 | 7.8 | 971.6 | 91.0 |
| TRF | 60.1 | 6.8 | 921.1 | 3.6 | |
| TideHunter | 100.0 | 18.4 | 996.0 | 2.9 | |
| 20 | INC-seq | 100.0 | 16.9 | 988.3 | 181.5 |
| TRF | 84.6 | 14.6 | 934.0 | 10.3 |
Note: The best performance regarding each specific feature on each dataset.