PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
6751-6800 / 86044 show all | |||||||||||||||
| mlin-fermikit | INDEL | C6_15 | HG002complexvar | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| mlin-fermikit | INDEL | C6_15 | HG002complexvar | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| mlin-fermikit | INDEL | D16_PLUS | HG002complexvar | * | 88.7656 | 86.9142 | 90.6977 | 68.5511 | 1428 | 215 | 1443 | 148 | 132 | 89.1892 | |
| mlin-fermikit | INDEL | D16_PLUS | HG002complexvar | het | 90.4295 | 87.7145 | 93.3180 | 67.0463 | 971 | 136 | 810 | 58 | 45 | 77.5862 | |
| mlin-fermikit | INDEL | D16_PLUS | HG002complexvar | hetalt | 85.1780 | 74.4939 | 99.4398 | 52.4000 | 184 | 63 | 355 | 2 | 2 | 100.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | HG002complexvar | homalt | 84.2050 | 94.4637 | 75.9563 | 78.1493 | 273 | 16 | 278 | 88 | 85 | 96.5909 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | HG002complexvar | * | 95.0986 | 92.0876 | 98.3131 | 57.3034 | 1513 | 130 | 1457 | 25 | 19 | 76.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | HG002complexvar | het | 95.7312 | 92.5926 | 99.0900 | 55.4905 | 1025 | 82 | 980 | 9 | 3 | 33.3333 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | HG002complexvar | hetalt | 90.0802 | 86.6397 | 93.8053 | 58.5321 | 214 | 33 | 212 | 14 | 14 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | HG002complexvar | homalt | 96.9795 | 94.8097 | 99.2509 | 62.0739 | 274 | 15 | 265 | 2 | 2 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | HG002complexvar | * | 90.6795 | 84.1100 | 98.3622 | 53.8256 | 1101 | 208 | 1021 | 17 | 16 | 94.1176 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | HG002complexvar | het | 91.1805 | 84.2105 | 99.4083 | 47.5155 | 560 | 105 | 504 | 3 | 2 | 66.6667 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | HG002complexvar | hetalt | 85.0270 | 74.6269 | 98.7952 | 62.9464 | 250 | 85 | 246 | 3 | 3 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | HG002complexvar | homalt | 95.1273 | 94.1748 | 96.0993 | 53.7705 | 291 | 18 | 271 | 11 | 11 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002complexvar | * | 99.2488 | 98.7471 | 99.7557 | 52.7857 | 32944 | 418 | 32259 | 79 | 48 | 60.7595 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002complexvar | het | 99.2372 | 98.7905 | 99.6881 | 51.9353 | 17969 | 220 | 17257 | 54 | 28 | 51.8519 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002complexvar | hetalt | 97.3210 | 95.3071 | 99.4220 | 76.8604 | 1645 | 81 | 1892 | 11 | 11 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002complexvar | homalt | 99.5102 | 99.1299 | 99.8933 | 45.8849 | 13330 | 117 | 13110 | 14 | 9 | 64.2857 | |
| ltrigg-rtg1 | INDEL | I6_15 | HG002complexvar | * | 97.6888 | 96.0351 | 99.4005 | 50.9611 | 4602 | 190 | 4311 | 26 | 17 | 65.3846 | |
| ltrigg-rtg1 | INDEL | I6_15 | HG002complexvar | het | 98.2042 | 97.1125 | 99.3207 | 49.9393 | 2287 | 68 | 2047 | 14 | 8 | 57.1429 | |
| ltrigg-rtg1 | INDEL | I6_15 | HG002complexvar | hetalt | 95.3064 | 91.3328 | 99.6416 | 58.0293 | 1117 | 106 | 1112 | 4 | 4 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | HG002complexvar | homalt | 98.9952 | 98.6820 | 99.3103 | 43.9072 | 1198 | 16 | 1152 | 8 | 5 | 62.5000 | |
| ltrigg-rtg1 | SNP | * | HG002complexvar | * | 99.8490 | 99.7395 | 99.9587 | 18.9301 | 752419 | 1965 | 752595 | 311 | 136 | 43.7299 | |
| ltrigg-rtg1 | SNP | * | HG002complexvar | het | 99.8148 | 99.6788 | 99.9511 | 18.4181 | 464005 | 1495 | 464235 | 227 | 59 | 25.9912 | |
| ltrigg-rtg1 | SNP | * | HG002complexvar | hetalt | 98.8749 | 99.0323 | 98.7179 | 36.8421 | 307 | 3 | 308 | 4 | 4 | 100.0000 | |
| ltrigg-rtg1 | SNP | * | HG002complexvar | homalt | 99.9052 | 99.8382 | 99.9722 | 19.7176 | 288107 | 467 | 288052 | 80 | 73 | 91.2500 | |
| ltrigg-rtg1 | INDEL | D6_15 | HG002complexvar | * | 97.6527 | 96.5862 | 98.7430 | 52.4974 | 5121 | 181 | 4949 | 63 | 48 | 76.1905 | |
| ltrigg-rtg1 | INDEL | D6_15 | HG002complexvar | het | 98.5474 | 97.7564 | 99.3513 | 51.5467 | 3050 | 70 | 2910 | 19 | 5 | 26.3158 | |
| ltrigg-rtg1 | INDEL | D6_15 | HG002complexvar | hetalt | 93.3550 | 91.2142 | 95.5988 | 55.5303 | 924 | 89 | 934 | 43 | 43 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | HG002complexvar | homalt | 99.0057 | 98.1180 | 99.9096 | 52.1005 | 1147 | 22 | 1105 | 1 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | C6_15 | HG002complexvar | * | 99.3197 | 100.0000 | 98.6486 | 84.1134 | 4 | 0 | 365 | 5 | 2 | 40.0000 | |
| ltrigg-rtg1 | INDEL | C6_15 | HG002complexvar | het | 99.4186 | 100.0000 | 98.8439 | 78.6420 | 4 | 0 | 171 | 2 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | C6_15 | HG002complexvar | hetalt | 0.0000 | 0.0000 | 98.6111 | 83.5616 | 0 | 0 | 142 | 2 | 1 | 50.0000 | |
| ltrigg-rtg1 | INDEL | C6_15 | HG002complexvar | homalt | 0.0000 | 0.0000 | 98.1132 | 91.7574 | 0 | 0 | 52 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | HG002complexvar | * | 99.1020 | 98.6275 | 99.5810 | 54.4390 | 32266 | 449 | 32088 | 135 | 85 | 62.9630 | |
| ltrigg-rtg1 | INDEL | D1_5 | HG002complexvar | het | 99.1733 | 98.7383 | 99.6122 | 51.3027 | 20503 | 262 | 20294 | 79 | 31 | 39.2405 | |
| ltrigg-rtg1 | INDEL | D1_5 | HG002complexvar | hetalt | 94.6417 | 92.8994 | 96.4505 | 77.3885 | 1256 | 96 | 1413 | 52 | 51 | 98.0769 | |
| ltrigg-rtg1 | INDEL | D1_5 | HG002complexvar | homalt | 99.5497 | 99.1413 | 99.9615 | 53.6591 | 10507 | 91 | 10381 | 4 | 3 | 75.0000 | |
| jmaeng-gatk | INDEL | D6_15 | HG002complexvar | * | 97.9225 | 97.3595 | 98.4921 | 58.5358 | 5162 | 140 | 5160 | 79 | 74 | 93.6709 | |
| jmaeng-gatk | INDEL | D6_15 | HG002complexvar | het | 98.8845 | 98.7179 | 99.0517 | 59.4483 | 3080 | 40 | 3029 | 29 | 25 | 86.2069 | |
| jmaeng-gatk | INDEL | D6_15 | HG002complexvar | hetalt | 93.2190 | 90.3258 | 96.3037 | 47.2880 | 915 | 98 | 964 | 37 | 37 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | HG002complexvar | homalt | 99.3614 | 99.8289 | 98.8983 | 63.0673 | 1167 | 2 | 1167 | 13 | 12 | 92.3077 | |
| jmaeng-gatk | SNP | * | HG002complexvar | * | 99.5566 | 99.1508 | 99.9656 | 19.5091 | 747975 | 6406 | 747823 | 257 | 106 | 41.2451 | |
| jmaeng-gatk | SNP | * | HG002complexvar | het | 99.7155 | 99.4778 | 99.9544 | 19.1665 | 463066 | 2431 | 462938 | 211 | 65 | 30.8057 | |
| jmaeng-gatk | SNP | * | HG002complexvar | hetalt | 97.8723 | 96.4516 | 99.3355 | 40.5138 | 299 | 11 | 299 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | HG002complexvar | homalt | 99.3008 | 98.6263 | 99.9845 | 20.0307 | 284610 | 3964 | 284586 | 44 | 39 | 88.6364 | |
| jmaeng-gatk | SNP | ti | HG002complexvar | * | 99.5813 | 99.1995 | 99.9661 | 17.9457 | 504366 | 4070 | 504306 | 171 | 77 | 45.0292 | |
| jmaeng-gatk | SNP | ti | HG002complexvar | het | 99.7293 | 99.5044 | 99.9553 | 17.6005 | 313206 | 1560 | 313156 | 140 | 49 | 35.0000 | |
| jmaeng-gatk | SNP | ti | HG002complexvar | hetalt | 97.2973 | 95.6522 | 99.0000 | 40.4762 | 198 | 9 | 198 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | ti | HG002complexvar | homalt | 99.3419 | 98.7072 | 99.9848 | 18.4737 | 190962 | 2501 | 190952 | 29 | 26 | 89.6552 | |