Table 3 Sensitivities and positive predictive values (PPVs) of HexDiff and other algorithms. A known CRM was considered recovered if a predicted CRM overlapped it by at least 50 bp. The PPVs in this table are italicized because they are estimates of the true PPVs. Without complete knowledge of all CRMs that are present in the 16 sequences, it is possible that some of the predicted CRMs that are labeled as false positives are actually true positives.
From: Using hexamers to predict cis-regulatory motifs in Drosophila
Algorithm | CRMs Recovered | Num CRMs | Sensitivity TP/(TP + FN) | True Positives | CRMs Predicted | PPV TP/(TP + FP) |
|---|---|---|---|---|---|---|
HexDiff | 36 | 52 | 69.23% | 35 | 104 | 33.65% |
Ahab | 23 | 52 | 44.23% | 20 | 35 | 57.14% |
Cluster Buster | 31 | 52 | 59.62% | 23 | 88 | 26.14% |
MSCAN | 34 | 52 | 65.38% | 42 | 226 | 18.58% |
MCAST | 43 | 52 | 82.69% | 53 | 499 | 10.62% |
LWF | 27 | 52 | 51.92% | 48 | 433 | 11.09% |