Table 2 Comparison between methods.
From: ModuleDigger: an itemset mining framework for the detection of cis-regulatory modules
A | |||||||||
|---|---|---|---|---|---|---|---|---|---|
Method | Clover | ModuleSearcher(A*) | ModuleDigger | ||||||
Running time | 1.6 min | 0.5 min | 10 s | ||||||
| Â | NM | SRR | Sn | NM | SRR | Sn | NM | SRR | Sn |
OCT4, SOX2, NANOG | 0 | 0 | 0 | 2.4 | 10 | 1.1% | 6 | 10 | 27.6% |
OCT4, SOX2 | 3.9 | 10 | 45.3% | 0 | 0 | 0 | 2 | 10 | 49.1% |
OCT4, NANOG | 0 | 0 | 0 | 0 | 0 | 0 | 3 | 10 | 42.2% |
SOX2, NANOG | 0 | 0 | 0 | 2.4 | 10 | 0.9% | 9 | 10 | 28.4% |
B | Â | Â | Â | Â | Â | Â | Â | Â | Â |
Method | Clover | ModuleSearcher (A*) | ModuleDigger | ||||||
Running time | 4 min | 0.5 min | 20 s | ||||||
| Â | NM | SRR | Sn | NM | SRR | Sn | NM | SRR | Sn |
OCT4, SOX2, NANOG | 0 | 0 | 0 | 0 | 0 | 0 | 5 | 10 | 28% |
OCT4, SOX2 | 6.8 | 10 | 45.3% | 21 | 5 | 2.8% | 18 | 10 | 49% |
OCT4, NANOG | 0 | 0 | 0 | 0 | 0 | 0 | 23 | 10 | 42% |
SOX2, NANOG | 0 | 0 | 0 | 21 | 4 | 0.5% | 20 | 10 | 9% |