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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
28701-28750 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 90.5425 | 92.0000 | 89.1304 | 86.4706 | 46 | 4 | 41 | 5 | 2 | 40.0000 | |
| dgrover-gatk | INDEL | * | map_l125_m0_e0 | het | 97.2014 | 97.4446 | 96.9595 | 91.3349 | 572 | 15 | 574 | 18 | 2 | 11.1111 | |
| dgrover-gatk | INDEL | * | map_l250_m0_e0 | * | 90.1235 | 93.5897 | 86.9048 | 97.9749 | 73 | 5 | 73 | 11 | 2 | 18.1818 | |
| dgrover-gatk | INDEL | * | map_l250_m1_e0 | homalt | 96.2963 | 95.4128 | 97.1963 | 95.1496 | 104 | 5 | 104 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | * | map_l250_m2_e0 | homalt | 96.4912 | 95.6522 | 97.3451 | 95.5424 | 110 | 5 | 110 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | * | map_l250_m2_e1 | homalt | 96.5217 | 95.6897 | 97.3684 | 95.6322 | 111 | 5 | 111 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | * | segdup | het | 99.0133 | 99.2497 | 98.7780 | 95.2951 | 1455 | 11 | 1455 | 18 | 2 | 11.1111 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.2903 | 98.1771 | 96.4194 | 86.0507 | 377 | 7 | 377 | 14 | 2 | 14.2857 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3521 | 100.0000 | 98.7124 | 71.6889 | 230 | 0 | 230 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 93.3333 | 91.3043 | 95.4545 | 68.5714 | 42 | 4 | 42 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | map_siren | * | 92.1664 | 95.1049 | 89.4040 | 94.7129 | 136 | 7 | 135 | 16 | 2 | 12.5000 | |
| dgrover-gatk | INDEL | D16_PLUS | map_siren | het | 91.2085 | 96.1538 | 86.7470 | 95.9234 | 75 | 3 | 72 | 11 | 2 | 18.1818 | |
| dgrover-gatk | INDEL | D16_PLUS | segdup | * | 92.5620 | 96.5517 | 88.8889 | 96.4467 | 56 | 2 | 56 | 7 | 2 | 28.5714 | |
| dgrover-gatk | INDEL | D16_PLUS | segdup | het | 90.9091 | 100.0000 | 83.3333 | 96.7033 | 37 | 0 | 35 | 7 | 2 | 28.5714 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 83.4621 | 71.8941 | 99.4667 | 29.5113 | 353 | 138 | 373 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 95.3020 | 94.6667 | 95.9459 | 64.9289 | 71 | 4 | 71 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 92.8571 | 100.0000 | 86.6667 | 58.3333 | 13 | 0 | 13 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m0_e0 | het | 97.9819 | 98.4772 | 97.4916 | 87.0169 | 582 | 9 | 583 | 15 | 2 | 13.3333 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m0_e0 | homalt | 99.0291 | 98.8372 | 99.2218 | 84.4337 | 255 | 3 | 255 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m1_e0 | homalt | 99.4073 | 99.1554 | 99.6604 | 83.4225 | 587 | 5 | 587 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.4258 | 99.1817 | 99.6711 | 84.0629 | 606 | 5 | 606 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m2_e1 | homalt | 99.4341 | 99.1935 | 99.6759 | 84.1347 | 615 | 5 | 615 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | map_l125_m0_e0 | homalt | 98.3051 | 97.9730 | 98.6395 | 87.7704 | 145 | 3 | 145 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | map_l125_m1_e0 | het | 98.2870 | 98.6226 | 97.9536 | 88.0013 | 716 | 10 | 718 | 15 | 2 | 13.3333 | |
| dgrover-gatk | INDEL | D1_5 | map_l125_m1_e0 | homalt | 99.1379 | 98.8539 | 99.4236 | 85.6730 | 345 | 4 | 345 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | map_l125_m2_e0 | het | 98.3718 | 98.6911 | 98.0545 | 88.4753 | 754 | 10 | 756 | 15 | 2 | 13.3333 | |
| dgrover-gatk | INDEL | D1_5 | map_l125_m2_e0 | homalt | 99.1736 | 98.9011 | 99.4475 | 86.3961 | 360 | 4 | 360 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | map_l125_m2_e1 | het | 98.3844 | 98.7013 | 98.0695 | 88.5449 | 760 | 10 | 762 | 15 | 2 | 13.3333 | |
| dgrover-gatk | INDEL | D1_5 | map_l125_m2_e1 | homalt | 99.1914 | 98.9247 | 99.4595 | 86.3921 | 368 | 4 | 368 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | map_l150_m1_e0 | het | 97.9436 | 98.5477 | 97.3469 | 90.2488 | 475 | 7 | 477 | 13 | 2 | 15.3846 | |
| dgrover-gatk | INDEL | D1_5 | map_l150_m2_e0 | het | 98.0706 | 98.6381 | 97.5096 | 90.6250 | 507 | 7 | 509 | 13 | 2 | 15.3846 | |
| dgrover-gatk | INDEL | D1_5 | map_l150_m2_e1 | het | 98.0028 | 98.4674 | 97.5425 | 90.6603 | 514 | 8 | 516 | 13 | 2 | 15.3846 | |
| dgrover-gatk | INDEL | D1_5 | map_l150_m2_e1 | homalt | 98.7854 | 98.3871 | 99.1870 | 88.4507 | 244 | 4 | 244 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | segdup | * | 99.5471 | 99.5467 | 99.5475 | 94.9619 | 1098 | 5 | 1100 | 5 | 2 | 40.0000 | |
| dgrover-gatk | INDEL | D1_5 | segdup | homalt | 99.7222 | 100.0000 | 99.4460 | 94.5665 | 359 | 0 | 359 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.2332 | 96.8504 | 97.6190 | 79.0698 | 123 | 4 | 123 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.6017 | 99.5025 | 99.7012 | 65.7688 | 1000 | 5 | 1001 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.6526 | 99.6524 | 99.6528 | 63.6057 | 860 | 3 | 861 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 88.2389 | 79.1284 | 99.7203 | 27.1152 | 690 | 182 | 713 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.0846 | 98.4716 | 99.7052 | 68.3462 | 1353 | 21 | 1353 | 4 | 2 | 50.0000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 93.4013 | 92.5651 | 94.2529 | 71.0322 | 249 | 20 | 246 | 15 | 2 | 13.3333 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 95.4743 | 92.1659 | 99.0291 | 42.7778 | 200 | 17 | 204 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_l100_m0_e0 | homalt | 98.5646 | 99.0385 | 98.0952 | 80.8743 | 206 | 2 | 206 | 4 | 2 | 50.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_l100_m1_e0 | homalt | 99.1321 | 99.2278 | 99.0366 | 81.5237 | 514 | 4 | 514 | 5 | 2 | 40.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_l100_m2_e0 | homalt | 99.1533 | 99.2467 | 99.0602 | 83.0249 | 527 | 4 | 527 | 5 | 2 | 40.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_l100_m2_e1 | homalt | 99.1674 | 99.2593 | 99.0758 | 83.1779 | 536 | 4 | 536 | 5 | 2 | 40.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_l125_m0_e0 | * | 97.9066 | 98.0645 | 97.7492 | 88.9363 | 304 | 6 | 304 | 7 | 2 | 28.5714 | |
| egarrison-hhga | INDEL | I1_5 | map_l125_m1_e0 | * | 98.7342 | 98.6747 | 98.7937 | 86.0391 | 819 | 11 | 819 | 10 | 2 | 20.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_l125_m2_e0 | * | 98.7150 | 98.5998 | 98.8304 | 87.2578 | 845 | 12 | 845 | 10 | 2 | 20.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_l125_m2_e1 | * | 98.7342 | 98.6207 | 98.8479 | 87.4221 | 858 | 12 | 858 | 10 | 2 | 20.0000 | |