Table 1 Comparison of computational times (in seconds) on simulated data and Coriell data. These are total times required to process 10 simulated and 11 Coriell profiles
From: iSeg: an efficient algorithm for segmentation of genomic and epigenomic data
Method | Simulation (SNR ≃ 1.0, n = 5000) | Simulation (SNR ≃ 1.0, n = 100 K) | Coriell |
|---|---|---|---|
iSeg (C++) | 0.164 | 1.223 | 0.294 |
DNAcopy (R) | 2.267 | 60.343 | 3.098 |
Fastseg (R) | 0.647 | 48.139 | 0.630 |
CGHSeg (R) | 54.480 | 157.626 | 24.36 |
HMMSeg (Java) | 0.543 | 160.790 | 0.552 |