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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
8351-8400 / 86044 show all | |||||||||||||||
| mlin-fermikit | INDEL | D6_15 | HG002compoundhet | hetalt | 78.2401 | 64.3602 | 99.7528 | 23.4532 | 5246 | 2905 | 5245 | 13 | 13 | 100.0000 | |
| mlin-fermikit | INDEL | D6_15 | HG002compoundhet | homalt | 6.8943 | 83.3333 | 3.5959 | 68.2436 | 20 | 4 | 21 | 563 | 555 | 98.5790 | |
| mlin-fermikit | INDEL | C16_PLUS | HG002compoundhet | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| mlin-fermikit | INDEL | C16_PLUS | HG002compoundhet | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| mlin-fermikit | INDEL | C16_PLUS | HG002compoundhet | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| mlin-fermikit | INDEL | C16_PLUS | HG002compoundhet | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| mlin-fermikit | INDEL | I1_5 | HG002compoundhet | * | 72.7922 | 67.2062 | 79.3909 | 62.5413 | 8304 | 4052 | 8290 | 2152 | 2132 | 99.0706 | |
| mlin-fermikit | INDEL | I1_5 | HG002compoundhet | het | 38.7440 | 70.5882 | 26.6993 | 68.3093 | 600 | 250 | 546 | 1499 | 1487 | 99.1995 | |
| mlin-fermikit | INDEL | I1_5 | HG002compoundhet | hetalt | 79.4743 | 66.1627 | 99.4916 | 57.4825 | 7395 | 3782 | 7437 | 38 | 38 | 100.0000 | |
| mlin-fermikit | INDEL | I1_5 | HG002compoundhet | homalt | 49.1644 | 93.9210 | 33.2972 | 76.0021 | 309 | 20 | 307 | 615 | 607 | 98.6992 | |
| mlin-fermikit | INDEL | D1_5 | HG002compoundhet | * | 74.1830 | 69.7262 | 79.2484 | 64.3487 | 8531 | 3704 | 8520 | 2231 | 2171 | 97.3106 | |
| mlin-fermikit | INDEL | D1_5 | HG002compoundhet | het | 59.9144 | 80.4398 | 47.7343 | 63.4097 | 1390 | 338 | 1380 | 1511 | 1467 | 97.0880 | |
| mlin-fermikit | INDEL | D1_5 | HG002compoundhet | hetalt | 80.3857 | 67.3160 | 99.7534 | 60.0394 | 6877 | 3339 | 6877 | 17 | 17 | 100.0000 | |
| mlin-fermikit | INDEL | D1_5 | HG002compoundhet | homalt | 41.8824 | 90.7216 | 27.2257 | 80.6916 | 264 | 27 | 263 | 703 | 687 | 97.7240 | |
| ltrigg-rtg1 | INDEL | D1_5 | HG002compoundhet | * | 96.8842 | 94.7609 | 99.1047 | 63.0486 | 11594 | 641 | 11623 | 105 | 78 | 74.2857 | |
| ltrigg-rtg1 | INDEL | D1_5 | HG002compoundhet | het | 96.9264 | 96.5856 | 97.2696 | 68.4720 | 1669 | 59 | 1710 | 48 | 21 | 43.7500 | |
| ltrigg-rtg1 | INDEL | D1_5 | HG002compoundhet | hetalt | 96.9361 | 94.4597 | 99.5459 | 61.8378 | 9650 | 566 | 9645 | 44 | 44 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | HG002compoundhet | homalt | 94.9357 | 94.5017 | 95.3737 | 63.6951 | 275 | 16 | 268 | 13 | 13 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002compoundhet | * | 96.6675 | 94.0758 | 99.4060 | 64.7187 | 11624 | 732 | 11547 | 69 | 52 | 75.3623 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002compoundhet | het | 96.0823 | 94.8235 | 97.3750 | 74.4000 | 806 | 44 | 779 | 21 | 5 | 23.8095 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002compoundhet | hetalt | 96.8755 | 94.0503 | 99.8757 | 63.2515 | 10512 | 665 | 10446 | 13 | 13 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | HG002compoundhet | homalt | 91.5810 | 93.0091 | 90.1961 | 73.3184 | 306 | 23 | 322 | 35 | 34 | 97.1429 | |
| ltrigg-rtg1 | INDEL | I6_15 | HG002compoundhet | * | 94.7100 | 90.6791 | 99.1159 | 32.9210 | 7958 | 818 | 7848 | 70 | 64 | 91.4286 | |
| ltrigg-rtg1 | INDEL | I6_15 | HG002compoundhet | het | 94.6384 | 94.2308 | 95.0495 | 73.6292 | 196 | 12 | 192 | 10 | 6 | 60.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | HG002compoundhet | hetalt | 95.0169 | 90.5822 | 99.9083 | 29.3644 | 7733 | 804 | 7628 | 7 | 6 | 85.7143 | |
| ltrigg-rtg1 | INDEL | I6_15 | HG002compoundhet | homalt | 50.4818 | 93.5484 | 34.5679 | 64.6288 | 29 | 2 | 28 | 53 | 52 | 98.1132 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | HG002compoundhet | * | 94.7189 | 90.8586 | 98.9217 | 29.6040 | 2127 | 214 | 2110 | 23 | 23 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | HG002compoundhet | het | 94.1181 | 90.6173 | 97.9003 | 50.1961 | 367 | 38 | 373 | 8 | 8 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | HG002compoundhet | hetalt | 94.9583 | 90.9232 | 99.3682 | 22.2073 | 1753 | 175 | 1730 | 11 | 11 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | HG002compoundhet | homalt | 73.6842 | 87.5000 | 63.6364 | 59.2593 | 7 | 1 | 7 | 4 | 4 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | HG002compoundhet | * | 84.3510 | 75.2217 | 96.0024 | 42.9312 | 1612 | 531 | 1585 | 66 | 64 | 96.9697 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | HG002compoundhet | het | 74.1304 | 65.9574 | 84.6154 | 79.8969 | 31 | 16 | 33 | 6 | 5 | 83.3333 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | HG002compoundhet | hetalt | 85.8044 | 75.3942 | 99.5501 | 38.3274 | 1578 | 515 | 1549 | 7 | 7 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | HG002compoundhet | homalt | 10.1695 | 100.0000 | 5.3571 | 68.1818 | 3 | 0 | 3 | 53 | 52 | 98.1132 | |
| ltrigg-rtg1 | INDEL | C6_15 | HG002compoundhet | * | 0.0000 | 0.0000 | 97.7778 | 86.8677 | 0 | 0 | 132 | 3 | 2 | 66.6667 | |
| ltrigg-rtg1 | INDEL | C6_15 | HG002compoundhet | het | 0.0000 | 0.0000 | 95.0000 | 88.0952 | 0 | 0 | 19 | 1 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | C6_15 | HG002compoundhet | hetalt | 0.0000 | 0.0000 | 99.1228 | 86.3309 | 0 | 0 | 113 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | C6_15 | HG002compoundhet | homalt | 0.0000 | 0.0000 | 96.1538 | 0 | 0 | 0 | 1 | 1 | 100.0000 | ||
| ltrigg-rtg1 | SNP | * | HG002compoundhet | * | 98.7318 | 97.7074 | 99.7779 | 38.3623 | 25230 | 592 | 25160 | 56 | 17 | 30.3571 | |
| ltrigg-rtg1 | SNP | * | HG002compoundhet | het | 98.6093 | 97.5384 | 99.7040 | 42.5144 | 13829 | 349 | 13809 | 41 | 9 | 21.9512 | |
| ltrigg-rtg1 | SNP | * | HG002compoundhet | hetalt | 99.8257 | 99.6520 | 100.0000 | 21.3175 | 859 | 3 | 860 | 0 | 0 | ||
| ltrigg-rtg1 | SNP | * | HG002compoundhet | homalt | 98.8047 | 97.7741 | 99.8572 | 33.1849 | 10542 | 240 | 10491 | 15 | 8 | 53.3333 | |
| ltrigg-rtg1 | INDEL | D6_15 | HG002compoundhet | * | 96.2411 | 93.4780 | 99.1726 | 30.6557 | 8442 | 589 | 8390 | 70 | 63 | 90.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | HG002compoundhet | het | 96.8725 | 96.2617 | 97.4910 | 56.0860 | 824 | 32 | 816 | 21 | 15 | 71.4286 | |
| ltrigg-rtg1 | INDEL | D6_15 | HG002compoundhet | hetalt | 96.2297 | 93.1910 | 99.4731 | 25.6779 | 7596 | 555 | 7552 | 40 | 40 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | HG002compoundhet | homalt | 80.0000 | 91.6667 | 70.9677 | 60.7595 | 22 | 2 | 22 | 9 | 8 | 88.8889 | |
| astatham-gatk | INDEL | D1_5 | HG002compoundhet | * | 96.5582 | 95.6110 | 97.5244 | 66.3015 | 11698 | 537 | 11700 | 297 | 294 | 98.9899 | |
| astatham-gatk | INDEL | D1_5 | HG002compoundhet | het | 96.0425 | 98.2639 | 93.9193 | 78.7076 | 1698 | 30 | 1699 | 110 | 109 | 99.0909 | |
| astatham-gatk | INDEL | D1_5 | HG002compoundhet | hetalt | 97.2654 | 95.0470 | 99.5898 | 58.5927 | 9710 | 506 | 9711 | 40 | 39 | 97.5000 | |
| astatham-gatk | INDEL | D1_5 | HG002compoundhet | homalt | 79.6703 | 99.6564 | 66.3616 | 87.7109 | 290 | 1 | 290 | 147 | 146 | 99.3197 | |