Table 3.
Comparison of error rates and speed
| |
|
base-calling |
parameter estimation |
|
|---|---|---|---|---|
| Method | error rate | time (min) | time (min) | |
| Bustard |
0.0152 |
2 (total) |
|
|
| Rolexa |
0.0170 |
35 (total) |
|
|
| naiveBayesCall |
0.0132 |
21 |
1139 |
|
| BayesCall |
0.0124 |
231 |
1139 |
|
| ParticleCall |
||||
| (via MCEM) |
0.0124 |
88 |
1139 |
|
| ParticleCall |
||||
| (via PFEM) | 0.0125 | 91 | 39 |
The base-calling error rate and the running times of different algorithms. ParticleCall is run using parameters obtained via the MCEM parameter estimation scheme as well as via the PFEM parameter estimation algorithm proposed in this paper. For Bustard and Rolexa, only the total running times are reported.