CompaRNA - on-line benchmarks of RNA structure prediction methods
Home

Methods
Datasets
Rankings
RNA 2D Atlas

Help
FAQ

Contact us
RSS feeds
Twitter

Table of contents:

  1. Overview

  2. Performance Plots

  3. Performance of CRWrnafold - scored higher in this pairwise comparison

  4. Performance of RNAwolf - scored lower in this pairwise comparison

  5. Compile and download dataset for CRWrnafold & RNAwolf [.zip] - may take several seconds...


Overview

Metric CRWrnafold RNAwolf
MCC 0.296 > 0.199
Average MCC ± 95% Confidence Intervals 0.309 ± 0.029 > 0.215 ± 0.027
Sensitivity 0.302 > 0.212
Positive Predictive Value 0.292 > 0.188
Total TP 6224 > 4369
Total TN 45323736 > 45321852
Total FP 19706 < 24745
Total FP CONTRA 3022 < 3879
Total FP INCONS 12092 < 14974
Total FP COMP 4592 < 5892
Total FN 14389 < 16244
P-value 3.56938820447e-08

^top



Performance plots


  1. Comparison of performance of CRWrnafold and RNAwolf. Positive Predictive Value (PPV) is plotted against sensitivity. Each dot represents a single test of each method. See tables below for raw data (individual counts for CRWrnafold and RNAwolf).

  2. Comparison of average Matthews Correlation Coefficients (MCCs) for CRWrnafold and RNAwolf. The whiskers correspond to 95% confidence intervals (CIs). 'n' denotes the number of MCCs used to calculate average MCCs and CIs. See tables below for raw data (individual counts for CRWrnafold and RNAwolf).

^top




Performance of CRWrnafold - scored higher in this pairwise comparison

1. Total counts & total scores for CRWrnafold

Total Base Pair Counts
Total TP 6224
Total TN 45323736
Total FP 19706
Total FP CONTRA 3022
Total FP INCONS 12092
Total FP COMP 4592
Total FN 14389
Total Scores
MCC 0.296
Average MCC ± 95% Confidence Intervals 0.309 ± 0.029
Sensitivity 0.302
Positive Predictive Value 0.292
Nr of predictions 88

^top


2. Individual counts for CRWrnafold [ download as .csv ]

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
CRW_00002 - 0.32 0.31 0.33 82 408808 203 23 147 33 182
CRW_00417 - 0.47 0.46 0.49 121 458154 138 19 109 10 141
CRW_00418 - 0.11 0.11 0.12 28 441094 219 29 179 11 232
CRW_00419 - 0.11 0.11 0.11 28 463922 224 26 190 8 237
CRW_00421 - 0.44 0.44 0.45 116 462946 156 22 119 15 150
CRW_00422 - 0.26 0.25 0.27 66 455293 196 40 136 20 197
CRW_00424 - 0.30 0.31 0.30 113 789017 287 29 237 21 250
CRW_00426 - 0.22 0.22 0.22 58 457187 213 31 170 12 207
CRW_00427 - 0.30 0.30 0.30 78 454321 200 36 146 18 183
CRW_00428 - 0.22 0.22 0.22 56 465839 213 30 170 13 204
CRW_00430 - 0.28 0.27 0.29 73 456241 183 22 154 7 193
CRW_00433 - 0.24 0.24 0.26 62 467785 187 23 158 6 201
CRW_00434 - 0.28 0.27 0.30 71 457208 176 24 143 9 192
CRW_00435 - 0.34 0.33 0.35 87 451479 166 32 127 7 178
CRW_00437 - 0.37 0.37 0.38 95 456241 166 25 129 12 165
CRW_00438 - 0.37 0.35 0.39 94 454341 154 16 130 8 174
CRW_00441 - 0.34 0.32 0.35 85 454341 166 23 132 11 177
CRW_00442 - 0.36 0.36 0.35 95 453360 184 38 135 11 166
CRW_00443 - 0.31 0.30 0.32 79 456243 194 27 141 26 181
CRW_00444 - 0.30 0.30 0.31 78 459108 186 25 150 11 185
CRW_00445 - 0.28 0.27 0.28 72 458149 187 34 148 5 193
CRW_00446 - 0.25 0.25 0.26 66 468741 200 28 161 11 199
CRW_00447 - 0.28 0.28 0.28 72 452417 197 30 157 10 188
CRW_00448 - 0.21 0.21 0.21 55 457190 217 34 167 16 206
CRW_00449 - 0.21 0.20 0.22 51 444861 190 28 156 6 209
CRW_00450 - 0.28 0.27 0.29 72 458156 192 23 152 17 190
CRW_00451 - 0.22 0.22 0.23 57 457196 202 24 169 9 207
CRW_00452 - 0.32 0.31 0.33 81 453380 179 30 137 12 181
CRW_00453 - 0.14 0.13 0.15 35 452439 210 30 172 8 226
CRW_00456 - 0.15 0.14 0.15 38 470689 214 27 181 6 227
CRW_00457 - 0.25 0.24 0.27 63 467791 186 25 149 12 201
CRW_00458 - 0.43 0.43 0.44 113 464872 153 31 114 8 151
CRW_00459 - 0.35 0.34 0.36 89 461993 180 16 143 21 174
CRW_00462 - 0.24 0.23 0.25 61 458160 190 33 149 8 200
CRW_00463 - 0.52 0.50 0.54 126 445807 130 25 82 23 128
CRW_00464 - 0.30 0.29 0.31 77 461995 176 26 143 7 187
CRW_00530 - 0.23 0.25 0.21 67 534774 263 62 192 9 201
CRW_00532 - 0.15 0.17 0.13 45 579084 312 78 219 15 220
CRW_00533 - 0.21 0.23 0.19 51 453362 253 56 159 38 168
CRW_00538 - 0.23 0.25 0.21 76 811810 307 80 209 18 224
CRW_00604 - 0.60 0.64 0.55 52 411684 224 14 28 182 29
CRW_00606 - 0.66 0.68 0.64 63 559055 272 9 26 237 29
CRW_00607 - 0.53 0.55 0.52 42 536049 294 8 31 255 35
CRW_00615 - 0.31 0.35 0.26 29 553768 313 24 57 232 53
CRW_00617 - 0.14 0.17 0.12 11 426336 250 28 51 171 53
CRW_00678 - 0.39 0.41 0.36 50 666297 318 15 73 230 71
CRW_00680 - 0.35 0.40 0.30 49 516475 256 34 78 144 73
CRW_00683 - 0.21 0.23 0.19 31 460161 267 33 95 139 104
CRW_00684 - 0.29 0.32 0.27 43 612013 300 32 83 185 92
CRW_00702 - 0.24 0.35 0.16 26 357274 237 91 44 102 49
CRW_00704 - 0.82 0.81 0.83 76 386668 201 0 16 185 18
CRW_00706 - 0.48 0.54 0.43 32 695536 339 10 32 297 27
CRW_00713 - 0.58 0.58 0.58 59 731343 329 4 39 286 42
CRW_00730 - 0.69 0.72 0.66 116 338899 157 19 42 96 45
CRW_00734 - 0.27 0.35 0.21 39 536976 251 84 67 100 71
CRW_00735 - 0.28 0.37 0.22 45 677822 307 96 67 144 76
CRW_00740 - 0.00 0.00 0.00 0 489347 303 67 141 95 113
CRW_00746 - 0.41 0.46 0.36 101 550444 227 56 124 47 118
CRW_00750 - 0.30 0.33 0.27 53 709640 311 41 102 168 107
CRW_00751 - 0.32 0.38 0.27 68 489303 240 69 115 56 110
CRW_00753 - 0.23 0.25 0.21 45 489342 260 53 115 92 133
CRW_00757 - 0.10 0.12 0.08 15 415233 266 50 118 98 111
CRW_00765 - 0.41 0.41 0.40 106 452413 176 25 132 19 151
CRW_00766 - 0.18 0.18 0.18 43 440153 206 27 168 11 197
CRW_00768 - 0.38 0.37 0.38 96 471656 179 22 132 25 163
CRW_00769 - 0.43 0.42 0.44 106 451484 154 27 108 19 146
CRW_00773 - 0.47 0.46 0.48 120 451476 149 24 105 20 139
CRW_00774 - 0.18 0.18 0.18 47 488302 225 39 178 8 216
CRW_00777 - 0.25 0.27 0.24 82 719059 279 63 196 20 222
CRW_00780 - 0.13 0.13 0.13 34 475544 230 36 186 8 221
CRW_00783 - 0.20 0.20 0.20 51 453371 220 26 180 14 208
CRW_00784 - 0.26 0.26 0.27 67 456240 199 26 157 16 195
CRW_00785 - 0.30 0.29 0.30 74 452430 189 23 149 17 179
CRW_00787 - 0.28 0.29 0.28 88 646633 259 39 193 27 218
CRW_00794 - 0.25 0.25 0.25 62 434530 200 22 164 14 184
CRW_00796 - 0.13 0.13 0.14 30 384783 202 26 164 12 205
CRW_00797 - 0.25 0.26 0.24 89 692885 299 49 230 20 253
CRW_00801 - 0.43 0.44 0.43 109 438263 163 37 107 19 140
CRW_00802 - 0.30 0.30 0.31 75 460078 195 26 141 28 178
CRW_00813 - 0.18 0.23 0.14 31 530751 279 68 115 96 102
CRW_01186 - 0.27 0.27 0.27 105 836184 289 42 240 7 281
CRW_01250 - 0.30 0.30 0.30 114 781500 271 38 223 10 264
CRW_01266 - 0.30 0.30 0.30 115 818176 283 35 234 14 266
CRW_01271 - 0.29 0.30 0.28 115 827136 300 53 237 10 266
CRW_01344 - 0.23 0.23 0.23 83 791549 283 43 236 4 283
PDB_00409 - 0.27 0.31 0.23 77 688219 317 88 167 62 168
PDB_00805 - 0.59 0.58 0.60 176 467736 139 17 99 23 126
PDB_01261 - 0.48 0.45 0.50 152 467726 150 4 146 0 184

^top


Performance of RNAwolf - scored lower in this pairwise comparison

1. Total counts & total scores for RNAwolf

Total Base Pair Counts
Total TP 4369
Total TN 45321852
Total FP 24745
Total FP CONTRA 3879
Total FP INCONS 14974
Total FP COMP 5892
Total FN 16244
Total Scores
MCC 0.199
Average MCC ± 95% Confidence Intervals 0.215 ± 0.027
Sensitivity 0.212
Positive Predictive Value 0.188
Nr of predictions 88

^top


2. Individual counts for RNAwolf [ download as .csv ]

RNA Chain Rfam family MCC SENS PPV TP TN FP FP CONTRA FP INCONS FP COMP FN
CRW_00002 - 0.28 0.29 0.27 76 408775 248 40 169 39 188
CRW_00417 - 0.16 0.16 0.15 43 458123 262 39 198 25 219
CRW_00418 - 0.14 0.15 0.14 38 441051 257 48 193 16 222
CRW_00419 - 0.13 0.14 0.12 36 463875 271 46 209 16 229
CRW_00421 - 0.17 0.18 0.16 48 462897 276 52 206 18 218
CRW_00422 - 0.15 0.16 0.14 41 455242 274 39 213 22 222
CRW_00424 - 0.20 0.21 0.19 75 789009 339 43 269 27 288
CRW_00426 - 0.22 0.23 0.22 60 457173 236 41 172 23 205
CRW_00427 - 0.26 0.26 0.26 69 454312 242 35 165 42 192
CRW_00428 - 0.17 0.18 0.16 48 465797 277 52 198 27 212
CRW_00430 - 0.10 0.11 0.10 29 456197 279 45 219 15 237
CRW_00433 - 0.20 0.20 0.19 53 467752 243 36 187 20 210
CRW_00434 - 0.14 0.15 0.14 39 457167 272 43 197 32 224
CRW_00435 - 0.17 0.17 0.17 45 451453 253 34 193 26 220
CRW_00437 - 0.26 0.27 0.26 69 456226 230 32 163 35 191
CRW_00438 - 0.16 0.16 0.15 44 454297 253 44 196 13 224
CRW_00441 - 0.14 0.15 0.14 38 454303 253 49 191 13 224
CRW_00442 - 0.15 0.15 0.14 39 453356 254 41 192 21 222
CRW_00443 - 0.20 0.20 0.20 52 456224 251 42 172 37 208
CRW_00444 - 0.23 0.24 0.23 62 459095 240 39 165 36 201
CRW_00445 - 0.23 0.25 0.22 65 458114 258 46 178 34 200
CRW_00446 - 0.11 0.11 0.10 30 468710 276 47 209 20 235
CRW_00447 - 0.14 0.15 0.13 38 452387 274 38 213 23 222
CRW_00448 - 0.08 0.08 0.08 22 457185 260 47 192 21 239
CRW_00449 - 0.09 0.10 0.09 25 444821 265 45 205 15 235
CRW_00450 - 0.17 0.18 0.16 46 458120 263 37 200 26 216
CRW_00451 - 0.18 0.19 0.18 51 457155 266 47 193 26 213
CRW_00452 - 0.14 0.15 0.13 39 453337 275 42 210 23 223
CRW_00453 - 0.25 0.25 0.25 64 452419 227 33 160 34 197
CRW_00456 - 0.19 0.19 0.19 50 470672 235 38 175 22 215
CRW_00457 - 0.27 0.28 0.27 75 467746 248 26 181 41 189
CRW_00458 - 0.27 0.27 0.27 71 464866 208 41 152 15 193
CRW_00459 - 0.22 0.23 0.22 60 461968 248 35 178 35 203
CRW_00462 - 0.19 0.20 0.18 51 458126 254 29 197 28 210
CRW_00463 - 0.21 0.22 0.20 56 445761 243 47 176 20 198
CRW_00464 - 0.17 0.17 0.17 44 461979 238 40 178 20 220
CRW_00530 - 0.24 0.27 0.22 72 534761 278 73 189 16 196
CRW_00532 - 0.18 0.20 0.16 54 579094 303 69 209 25 211
CRW_00533 - 0.28 0.31 0.26 67 453372 266 43 146 77 152
CRW_00538 - 0.21 0.24 0.18 72 811777 358 86 240 32 228
CRW_00604 - 0.81 0.81 0.80 66 411696 242 2 14 226 15
CRW_00606 - 0.72 0.73 0.72 67 559060 311 5 21 285 25
CRW_00607 - 0.45 0.45 0.44 35 536050 325 12 33 280 42
CRW_00615 - 0.44 0.55 0.36 45 553753 334 38 42 254 37
CRW_00617 - 0.07 0.09 0.05 6 426305 316 43 72 201 58
CRW_00678 - 0.16 0.18 0.14 22 666279 384 32 102 250 99
CRW_00680 - 0.25 0.28 0.23 34 516487 293 22 93 178 88
CRW_00683 - 0.10 0.13 0.09 17 460126 313 48 129 136 118
CRW_00684 - 0.10 0.13 0.09 17 611976 357 48 130 179 118
CRW_00702 - 0.30 0.35 0.25 26 357333 263 32 44 187 49
CRW_00704 - 0.33 0.36 0.31 34 386650 255 25 51 179 60
CRW_00706 - 0.43 0.46 0.40 27 695542 380 10 31 339 32
CRW_00713 - 0.38 0.41 0.35 41 731327 351 24 53 274 60
CRW_00730 - 0.42 0.46 0.39 74 338884 207 22 96 89 87
CRW_00734 - 0.19 0.25 0.14 28 536966 318 85 87 146 82
CRW_00735 - 0.18 0.23 0.13 28 677820 354 81 101 172 93
CRW_00740 - 0.03 0.04 0.02 5 489307 321 131 112 78 108
CRW_00746 - 0.22 0.24 0.19 53 550453 297 42 177 78 166
CRW_00750 - 0.12 0.12 0.12 19 709674 362 28 115 219 141
CRW_00751 - 0.51 0.54 0.48 96 489353 226 22 84 120 82
CRW_00753 - 0.09 0.10 0.08 18 489326 306 44 167 95 160
CRW_00757 - 0.12 0.15 0.10 19 415231 297 55 111 131 107
CRW_00765 - 0.13 0.14 0.12 37 452376 272 55 208 9 220
CRW_00766 - 0.14 0.15 0.13 35 440129 259 41 186 32 205
CRW_00768 - 0.30 0.32 0.29 83 471617 239 48 158 33 176
CRW_00769 - 0.21 0.23 0.20 58 451429 261 51 187 23 194
CRW_00773 - 0.32 0.33 0.31 85 451453 218 45 142 31 174
CRW_00774 - 0.15 0.16 0.14 42 488276 276 32 216 28 221
CRW_00777 - 0.09 0.10 0.08 31 719031 376 64 274 38 273
CRW_00780 - 0.19 0.20 0.18 50 475527 242 42 181 19 205
CRW_00783 - 0.13 0.14 0.12 35 453340 266 49 204 13 224
CRW_00784 - 0.17 0.18 0.16 48 456191 277 37 214 26 214
CRW_00785 - 0.21 0.22 0.21 55 452412 242 43 166 33 198
CRW_00787 - 0.18 0.19 0.18 59 646617 305 35 242 28 247
CRW_00794 - 0.13 0.15 0.12 36 434484 283 53 205 25 210
CRW_00796 - 0.05 0.06 0.05 14 384732 272 52 205 15 221
CRW_00797 - 0.13 0.14 0.12 47 692868 356 57 281 18 295
CRW_00801 - 0.18 0.19 0.17 48 438233 249 59 176 14 201
CRW_00802 - 0.12 0.13 0.11 33 460031 275 47 209 19 220
CRW_00813 - 0.11 0.15 0.08 20 530728 326 95 122 109 113
CRW_01186 - 0.19 0.19 0.18 75 836163 348 55 278 15 311
CRW_01250 - 0.22 0.22 0.22 85 781486 328 41 263 24 293
CRW_01266 - 0.19 0.20 0.18 76 818139 366 54 291 21 305
CRW_01271 - 0.17 0.17 0.17 65 827149 364 36 291 37 316
CRW_01344 - 0.16 0.16 0.16 59 791531 333 54 267 12 307
PDB_00409 - 0.29 0.34 0.24 84 688207 347 81 179 87 161
PDB_00805 - 0.34 0.36 0.33 108 467696 243 40 184 19 194
PDB_01261 - 0.52 0.50 0.54 168 467715 157 13 132 12 168

^top

Matthews Correlation Coeffient, Sensitivity and Positive Predictive Value have been calculated based on the paper by Gardener & Giegerich, 2004.

Copyright© - Adam Mickiewicz University & IIMCB - All rights reserved