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Table of contents:
- Overview
- Performance Plots
- Performance of ContextFold - scored higher in this pairwise comparison
- Performance of Afold - scored lower in this pairwise comparison
- Compile and download dataset for ContextFold & Afold [.zip] - may take several seconds...
Overview
| Metric | ContextFold | Afold | |
|---|---|---|---|
| MCC | 0.709 | > | 0.677 |
| Average MCC ± 95% Confidence Intervals | 0.754 ± 0.136 | > | 0.748 ± 0.148 |
| Sensitivity | 0.610 | < | 0.624 |
| Positive Predictive Value | 0.831 | > | 0.740 |
| Total TP | 211 | < | 216 |
| Total TN | 36416 | > | 36378 |
| Total FP | 63 | < | 99 |
| Total FP CONTRA | 1 | < | 8 |
| Total FP INCONS | 42 | < | 68 |
| Total FP COMP | 20 | < | 23 |
| Total FN | 135 | > | 130 |
| P-value | 3.67407019774e-08 | ||
Performance plots
Performance of ContextFold - scored higher in this pairwise comparison
1. Total counts & total scores for ContextFold
| Total Base Pair Counts | |
|---|---|
| Total TP | 211 |
| Total TN | 36416 |
| Total FP | 63 |
| Total FP CONTRA | 1 |
| Total FP INCONS | 42 |
| Total FP COMP | 20 |
| Total FN | 135 |
| Total Scores | |
|---|---|
| MCC | 0.709 |
| Average MCC ± 95% Confidence Intervals | 0.754 ± 0.136 |
| Sensitivity | 0.610 |
| Positive Predictive Value | 0.831 |
| Nr of predictions | 18 |
2. Individual counts for ContextFold [ download as .csv ]
| RNA Chain | Rfam family | MCC | SENS | PPV | TP | TN | FP | FP CONTRA | FP INCONS | FP COMP | FN |
| 2LC8_A | 0.55 | 0.50 | 0.63 | 10 | 1524 | 6 | 0 | 6 | 0 | 10 | |
| 2LDL_A | - | 0.90 | 0.82 | 1.00 | 9 | 342 | 0 | 0 | 0 | 0 | 2 |
| 2LHP_A | - | 0.97 | 0.94 | 1.00 | 15 | 651 | 0 | 0 | 0 | 0 | 1 |
| 2LI4_A | - | 0.93 | 0.88 | 1.00 | 14 | 482 | 0 | 0 | 0 | 0 | 2 |
| 2LJJ_A | - | 0.93 | 0.88 | 1.00 | 7 | 344 | 2 | 0 | 0 | 2 | 1 |
| 2LK3_A | - | 0.89 | 0.80 | 1.00 | 8 | 268 | 0 | 0 | 0 | 0 | 2 |
| 2LKR_A | - | 0.65 | 0.56 | 0.76 | 22 | 6076 | 9 | 0 | 7 | 2 | 17 |
| 2LQZ_A | - | 0.80 | 0.73 | 0.89 | 8 | 342 | 1 | 1 | 0 | 0 | 3 |
| 2LWK_A | - | 0.88 | 0.85 | 0.92 | 11 | 484 | 1 | 0 | 1 | 0 | 2 |
| 3J0L_1 | - | 0.70 | 0.58 | 0.85 | 11 | 1212 | 3 | 0 | 2 | 1 | 8 |
| 3J0L_h | - | 0.82 | 0.67 | 1.00 | 29 | 6076 | 2 | 0 | 0 | 2 | 14 |
| 3J0L_7 | - | -0.01 | 0.00 | 0.00 | 0 | 1212 | 13 | 0 | 13 | 0 | 17 |
| 3SN2_B | 0.96 | 0.92 | 1.00 | 11 | 395 | 0 | 0 | 0 | 0 | 1 | |
| 3U4M_B | - | 0.75 | 0.57 | 1.00 | 21 | 3139 | 0 | 0 | 0 | 0 | 16 |
| 3VJR_D | - | 0.96 | 0.92 | 1.00 | 12 | 618 | 0 | 0 | 0 | 0 | 1 |
| 4A1C_2 | 0.20 | 0.15 | 0.28 | 5 | 11763 | 26 | 0 | 13 | 13 | 28 | |
| 4A4U_A | - | 1.00 | 1.00 | 1.00 | 9 | 222 | 0 | 0 | 0 | 0 | 0 |
| 4ENB_A | 0.69 | 0.47 | 1.00 | 9 | 1266 | 0 | 0 | 0 | 0 | 10 |
Performance of Afold - scored lower in this pairwise comparison
1. Total counts & total scores for Afold
| Total Base Pair Counts | |
|---|---|
| Total TP | 216 |
| Total TN | 36378 |
| Total FP | 99 |
| Total FP CONTRA | 8 |
| Total FP INCONS | 68 |
| Total FP COMP | 23 |
| Total FN | 130 |
| Total Scores | |
|---|---|
| MCC | 0.677 |
| Average MCC ± 95% Confidence Intervals | 0.748 ± 0.148 |
| Sensitivity | 0.624 |
| Positive Predictive Value | 0.740 |
| Nr of predictions | 18 |
2. Individual counts for Afold [ download as .csv ]
| RNA Chain | Rfam family | MCC | SENS | PPV | TP | TN | FP | FP CONTRA | FP INCONS | FP COMP | FN |
| 2LC8_A | 0.61 | 0.55 | 0.69 | 11 | 1524 | 6 | 0 | 5 | 1 | 9 | |
| 2LDL_A | - | 0.90 | 0.82 | 1.00 | 9 | 342 | 1 | 0 | 0 | 1 | 2 |
| 2LHP_A | - | 0.97 | 0.94 | 1.00 | 15 | 651 | 0 | 0 | 0 | 0 | 1 |
| 2LI4_A | - | 0.93 | 0.88 | 1.00 | 14 | 482 | 0 | 0 | 0 | 0 | 2 |
| 2LJJ_A | - | 1.00 | 1.00 | 1.00 | 8 | 343 | 2 | 0 | 0 | 2 | 0 |
| 2LK3_A | - | 0.95 | 0.90 | 1.00 | 9 | 267 | 0 | 0 | 0 | 0 | 1 |
| 2LKR_A | - | 0.93 | 0.87 | 1.00 | 34 | 6071 | 3 | 0 | 0 | 3 | 5 |
| 2LQZ_A | - | 0.85 | 0.82 | 0.90 | 9 | 341 | 1 | 1 | 0 | 0 | 2 |
| 2LWK_A | - | 0.75 | 0.69 | 0.82 | 9 | 485 | 2 | 0 | 2 | 0 | 4 |
| 3J0L_1 | - | 0.73 | 0.63 | 0.86 | 12 | 1211 | 3 | 0 | 2 | 1 | 7 |
| 3J0L_h | - | 0.73 | 0.60 | 0.90 | 26 | 6076 | 5 | 0 | 3 | 2 | 17 |
| 3J0L_7 | - | -0.01 | 0.00 | 0.00 | 0 | 1210 | 15 | 1 | 14 | 0 | 17 |
| 3SN2_B | 0.96 | 0.92 | 1.00 | 11 | 395 | 0 | 0 | 0 | 0 | 1 | |
| 3U4M_B | - | 0.38 | 0.32 | 0.46 | 12 | 3134 | 14 | 0 | 14 | 0 | 25 |
| 3VJR_D | - | 0.96 | 0.92 | 1.00 | 12 | 618 | 1 | 0 | 0 | 1 | 1 |
| 4A1C_2 | 0.14 | 0.15 | 0.14 | 5 | 11745 | 43 | 5 | 26 | 12 | 28 | |
| 4A4U_A | - | 1.00 | 1.00 | 1.00 | 9 | 222 | 0 | 0 | 0 | 0 | 0 |
| 4ENB_A | 0.67 | 0.58 | 0.79 | 11 | 1261 | 3 | 1 | 2 | 0 | 8 |
Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based on the paper by Gardener & Giegerich, 2004.