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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
43051-43100 / 86044 show all | |||||||||||||||
| asubramanian-gatk | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 76.9231 | 100.0000 | 62.5000 | 60.0000 | 5 | 0 | 5 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3981 | 98.8035 | 100.0000 | 36.3869 | 2725 | 33 | 2729 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4660 | 99.4311 | 99.5010 | 59.2336 | 19749 | 113 | 19742 | 99 | 60 | 60.6061 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.5180 | 99.5769 | 99.4593 | 62.5780 | 11061 | 47 | 11036 | 60 | 22 | 36.6667 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.7006 | 97.6510 | 99.7730 | 41.9121 | 2619 | 63 | 2637 | 6 | 6 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7043 | 99.9506 | 99.4592 | 57.8271 | 6069 | 3 | 6069 | 33 | 32 | 96.9697 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.4506 | 98.8726 | 98.0323 | 41.8823 | 17978 | 205 | 17985 | 361 | 4 | 1.1080 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.0571 | 98.8804 | 97.2473 | 44.6639 | 11305 | 128 | 11305 | 320 | 3 | 0.9375 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 76.9231 | 100.0000 | 62.5000 | 69.2308 | 5 | 0 | 5 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.1453 | 98.8584 | 99.4339 | 36.2670 | 6668 | 77 | 6675 | 38 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.9354 | 98.2913 | 99.5879 | 51.8136 | 3624 | 63 | 3625 | 15 | 11 | 73.3333 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.9657 | 98.3082 | 99.6321 | 61.0275 | 1627 | 28 | 1625 | 6 | 3 | 50.0000 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.6797 | 97.9695 | 99.4002 | 28.6675 | 1158 | 24 | 1160 | 7 | 6 | 85.7143 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.2314 | 98.7059 | 99.7625 | 51.4137 | 839 | 11 | 840 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.7291 | 97.9738 | 99.4961 | 65.8453 | 3820 | 79 | 4344 | 22 | 13 | 59.0909 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.6857 | 97.8861 | 99.4985 | 72.2979 | 1667 | 36 | 1984 | 10 | 2 | 20.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.5686 | 97.2591 | 99.9139 | 42.5606 | 1100 | 31 | 1161 | 1 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.9820 | 98.8732 | 99.0909 | 66.0303 | 1053 | 12 | 1199 | 11 | 11 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.6198 | 95.9122 | 99.3894 | 60.1406 | 1267 | 54 | 1465 | 9 | 5 | 55.5556 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 96.9948 | 94.8276 | 99.2634 | 69.4944 | 440 | 24 | 539 | 4 | 1 | 25.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 97.7907 | 95.9438 | 99.7101 | 42.8335 | 615 | 26 | 688 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.4507 | 98.1481 | 98.7552 | 66.1041 | 212 | 4 | 238 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.2940 | 95.6186 | 99.0291 | 76.0326 | 371 | 17 | 408 | 4 | 3 | 75.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 96.6553 | 94.0476 | 99.4118 | 79.9292 | 158 | 10 | 169 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.2984 | 97.1429 | 99.4819 | 65.9011 | 170 | 5 | 192 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 95.7366 | 95.5556 | 95.9184 | 83.9869 | 43 | 2 | 47 | 2 | 1 | 50.0000 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 61.2783 | 55.3295 | 68.6604 | 44.0399 | 2040 | 1647 | 1963 | 896 | 675 | 75.3348 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 69.3130 | 73.8369 | 65.3114 | 41.5571 | 1222 | 433 | 1510 | 802 | 609 | 75.9352 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 0.0000 | 31.9797 | 0.0000 | 0.0000 | 378 | 804 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 63.7080 | 51.7647 | 82.8154 | 52.5585 | 440 | 410 | 453 | 94 | 66 | 70.2128 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 15.5475 | 9.5361 | 42.0635 | 45.6897 | 37 | 351 | 53 | 73 | 43 | 58.9041 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 10.6916 | 5.9524 | 52.4590 | 42.9907 | 10 | 158 | 32 | 29 | 10 | 34.4828 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 0.0000 | 5.7143 | 0.0000 | 0.0000 | 10 | 165 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 34.8293 | 37.7778 | 32.3077 | 48.0000 | 17 | 28 | 21 | 44 | 33 | 75.0000 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 66.4196 | 55.6522 | 82.3529 | 58.1967 | 128 | 102 | 126 | 27 | 19 | 70.3704 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 77.4069 | 76.4295 | 78.4096 | 44.8000 | 9076 | 2799 | 9239 | 2544 | 1839 | 72.2877 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 81.2064 | 88.9071 | 74.7333 | 41.7707 | 5971 | 745 | 6655 | 2250 | 1626 | 72.2667 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 0.0000 | 36.0348 | 0.0000 | 0.0000 | 538 | 955 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 78.6812 | 70.0218 | 89.7846 | 52.4533 | 2567 | 1099 | 2584 | 294 | 213 | 72.4490 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 68.5075 | 66.4183 | 70.7325 | 47.6018 | 13192 | 6670 | 15431 | 6385 | 4862 | 76.1472 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 71.3041 | 72.8754 | 69.7991 | 45.2762 | 8095 | 3013 | 10629 | 4599 | 3296 | 71.6678 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 0.0000 | 30.4251 | 0.0000 | 0.0000 | 816 | 1866 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 71.6772 | 70.5040 | 72.8901 | 52.2851 | 4281 | 1791 | 4802 | 1786 | 1566 | 87.6820 | |
| anovak-vg | INDEL | C1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 0.0000 | 0.0000 | 24.3902 | 79.5000 | 0 | 1 | 10 | 31 | 0 | 0.0000 | |
| anovak-vg | INDEL | C1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 0.0000 | 0.0000 | 22.5000 | 78.2609 | 0 | 1 | 9 | 31 | 0 | 0.0000 | |
| anovak-vg | INDEL | C1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| anovak-vg | INDEL | C1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 0.0000 | 0.0000 | 100.0000 | 93.7500 | 0 | 0 | 1 | 0 | 0 | ||
| anovak-vg | INDEL | C6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 0.0000 | 0.0000 | 90.6977 | 0 | 0 | 0 | 4 | 0 | 0.0000 | ||
| anovak-vg | INDEL | C6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 0.0000 | 0.0000 | 90.4762 | 0 | 0 | 0 | 4 | 0 | 0.0000 | ||
| anovak-vg | INDEL | C6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||