PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
7301-7350 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_gt10 | hetalt | 100.0000 | 100.0000 | 100.0000 | 99.9924 | 1 | 0 | 1 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3362 | 98.9137 | 99.7624 | 51.3621 | 11746 | 129 | 11756 | 28 | 14 | 50.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2900 | 98.8833 | 99.7000 | 54.0745 | 6641 | 75 | 6647 | 20 | 7 | 35.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.8858 | 98.0576 | 99.7281 | 33.7984 | 1464 | 29 | 1467 | 4 | 3 | 75.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.6034 | 99.3181 | 99.8903 | 51.3153 | 3641 | 25 | 3642 | 4 | 4 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.1659 | 95.8604 | 98.5075 | 61.5311 | 1181 | 51 | 1188 | 18 | 14 | 77.7778 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.6923 | 95.5844 | 97.8261 | 79.5669 | 368 | 17 | 360 | 8 | 7 | 87.5000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.9530 | 95.0769 | 98.9045 | 23.1047 | 618 | 32 | 632 | 7 | 5 | 71.4286 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.7380 | 98.9848 | 98.4925 | 60.4374 | 195 | 2 | 196 | 3 | 2 | 66.6667 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_gt200 | * | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_gt200 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_gt200 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_gt200 | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5939 | 99.2396 | 99.9506 | 44.1181 | 4046 | 31 | 4050 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.3838 | 98.8184 | 99.9558 | 47.5296 | 2258 | 27 | 2261 | 1 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.6750 | 99.5671 | 99.7831 | 30.2572 | 460 | 2 | 460 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9248 | 99.8496 | 100.0000 | 41.6849 | 1328 | 2 | 1329 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 95.9459 | 94.6667 | 97.2603 | 65.5660 | 71 | 4 | 71 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | het | 96.2963 | 100.0000 | 92.8571 | 87.8261 | 13 | 0 | 13 | 1 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 95.7447 | 91.8367 | 100.0000 | 26.2295 | 45 | 4 | 45 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 96.2963 | 100.0000 | 92.8571 | 61.1111 | 13 | 0 | 13 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m0_e0 | * | 92.4081 | 90.2665 | 94.6537 | 88.7322 | 779 | 84 | 779 | 44 | 5 | 11.3636 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m0_e0 | het | 91.2220 | 89.6785 | 92.8196 | 89.5670 | 530 | 61 | 530 | 41 | 4 | 9.7561 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m0_e0 | hetalt | 92.3077 | 85.7143 | 100.0000 | 94.2857 | 12 | 2 | 12 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D1_5 | map_l100_m0_e0 | homalt | 95.1807 | 91.8605 | 98.7500 | 85.1943 | 237 | 21 | 237 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m1_e0 | * | 92.8980 | 89.5022 | 96.5618 | 87.1490 | 1654 | 194 | 1657 | 59 | 7 | 11.8644 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m1_e0 | het | 90.9054 | 87.1795 | 94.9640 | 88.1323 | 1054 | 155 | 1056 | 56 | 6 | 10.7143 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m1_e0 | hetalt | 96.7033 | 93.6170 | 100.0000 | 91.0020 | 44 | 3 | 44 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D1_5 | map_l100_m1_e0 | homalt | 96.6121 | 93.9189 | 99.4643 | 83.9725 | 556 | 36 | 557 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m2_e0 | * | 93.0444 | 89.7128 | 96.6330 | 87.5446 | 1718 | 197 | 1722 | 60 | 7 | 11.6667 | |
| asubramanian-gatk | INDEL | * | * | * | 98.8418 | 98.5404 | 99.1451 | 71.3671 | 339513 | 5029 | 339442 | 2927 | 1779 | 60.7790 | |
| asubramanian-gatk | INDEL | * | * | het | 98.9698 | 98.6849 | 99.2562 | 61.7813 | 191580 | 2553 | 191238 | 1433 | 589 | 41.1026 | |
| asubramanian-gatk | INDEL | * | * | hetalt | 95.6373 | 92.5665 | 98.9188 | 59.3274 | 23361 | 1876 | 23605 | 258 | 236 | 91.4729 | |
| asubramanian-gatk | INDEL | * | * | homalt | 99.2686 | 99.5207 | 99.0178 | 58.9491 | 124572 | 600 | 124599 | 1236 | 954 | 77.1845 | |
| asubramanian-gatk | INDEL | * | HG002complexvar | * | 98.8559 | 98.4299 | 99.2857 | 62.5855 | 75730 | 1208 | 75611 | 544 | 244 | 44.8529 | |
| asubramanian-gatk | INDEL | * | HG002complexvar | het | 98.7623 | 98.2061 | 99.3248 | 58.2604 | 45383 | 829 | 45014 | 306 | 59 | 19.2810 | |
| asubramanian-gatk | INDEL | * | HG002complexvar | hetalt | 95.4215 | 93.3225 | 97.6172 | 69.3301 | 3452 | 247 | 3687 | 90 | 84 | 93.3333 | |
| asubramanian-gatk | INDEL | * | HG002complexvar | homalt | 99.4823 | 99.5116 | 99.4530 | 57.3903 | 26895 | 132 | 26910 | 148 | 101 | 68.2432 | |
| asubramanian-gatk | INDEL | * | HG002compoundhet | * | 93.4362 | 93.2377 | 93.6356 | 65.8907 | 27934 | 2026 | 27836 | 1892 | 1575 | 83.2452 | |
| asubramanian-gatk | INDEL | * | HG002compoundhet | het | 90.4926 | 96.2872 | 85.3557 | 79.1653 | 3942 | 152 | 3707 | 636 | 459 | 72.1698 | |
| asubramanian-gatk | INDEL | * | HG002compoundhet | hetalt | 95.7396 | 92.5814 | 99.1208 | 52.6709 | 23312 | 1868 | 23449 | 208 | 188 | 90.3846 | |
| asubramanian-gatk | INDEL | * | HG002compoundhet | homalt | 56.3380 | 99.1254 | 39.3519 | 82.7957 | 680 | 6 | 680 | 1048 | 928 | 88.5496 | |
| asubramanian-gatk | INDEL | * | decoy | * | 100.0000 | 100.0000 | 100.0000 | 99.9865 | 10 | 0 | 10 | 0 | 0 | ||
| asubramanian-gatk | INDEL | * | decoy | het | 100.0000 | 100.0000 | 100.0000 | 99.9667 | 6 | 0 | 6 | 0 | 0 | ||
| asubramanian-gatk | INDEL | * | decoy | hetalt | 100.0000 | 100.0000 | 100.0000 | 99.8285 | 1 | 0 | 1 | 0 | 0 | ||
| asubramanian-gatk | INDEL | * | decoy | homalt | 100.0000 | 100.0000 | 100.0000 | 99.9307 | 3 | 0 | 3 | 0 | 0 | ||
| asubramanian-gatk | INDEL | * | func_cds | * | 98.8729 | 98.4270 | 99.3228 | 86.9360 | 438 | 7 | 440 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | * | func_cds | het | 98.5959 | 98.1308 | 99.0654 | 61.0909 | 210 | 4 | 212 | 2 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | * | func_cds | hetalt | 88.8889 | 80.0000 | 100.0000 | 63.6364 | 4 | 1 | 4 | 0 | 0 | ||