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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
37301-37350 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 85.3226 | 75.6324 | 97.8608 | 79.5261 | 71434 | 23015 | 71409 | 1561 | 832 | 53.2992 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 85.3199 | 80.0000 | 91.3978 | 73.4286 | 108 | 27 | 85 | 8 | 8 | 100.0000 | |
| gduggal-snapplat | INDEL | D1_5 | map_l100_m2_e0 | het | 85.3180 | 81.8471 | 89.0963 | 91.8164 | 1028 | 228 | 1193 | 146 | 28 | 19.1781 | |
| gduggal-snapplat | INDEL | D1_5 | map_l100_m2_e1 | * | 85.3151 | 80.0413 | 91.3330 | 91.1809 | 1552 | 387 | 1802 | 171 | 33 | 19.2982 | |
| ghariani-varprowl | INDEL | * | map_l250_m1_e0 | het | 85.3147 | 96.3158 | 76.5690 | 97.3834 | 183 | 7 | 183 | 56 | 10 | 17.8571 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 85.3128 | 76.1578 | 96.9697 | 63.3042 | 444 | 139 | 448 | 14 | 11 | 78.5714 | |
| ckim-isaac | INDEL | D16_PLUS | * | het | 85.3103 | 83.3175 | 87.4007 | 59.5500 | 2632 | 527 | 2310 | 333 | 202 | 60.6607 | |
| gduggal-snapfb | INDEL | D6_15 | * | het | 85.3034 | 77.5966 | 94.7099 | 36.4009 | 8995 | 2597 | 14269 | 797 | 773 | 96.9887 | |
| mlin-fermikit | INDEL | D1_5 | map_siren | * | 85.3013 | 78.7759 | 93.0054 | 76.3252 | 2780 | 749 | 2779 | 209 | 185 | 88.5167 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 85.2934 | 80.1932 | 91.0864 | 71.0950 | 332 | 82 | 327 | 32 | 22 | 68.7500 | |
| gduggal-bwavard | INDEL | C1_5 | HG002complexvar | * | 85.2929 | 85.7143 | 84.8757 | 79.2084 | 6 | 1 | 1605 | 286 | 106 | 37.0629 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 85.2919 | 75.6705 | 97.7165 | 64.9393 | 8690 | 2794 | 8687 | 203 | 174 | 85.7143 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 85.2884 | 84.6243 | 85.9630 | 70.3947 | 27073 | 4919 | 27454 | 4483 | 4096 | 91.3674 | |
| jmaeng-gatk | SNP | ti | map_l150_m2_e0 | het | 85.2876 | 76.1276 | 96.9535 | 90.1394 | 9806 | 3075 | 9802 | 308 | 33 | 10.7143 | |
| gduggal-snapplat | SNP | tv | map_l250_m1_e0 | het | 85.2855 | 81.0856 | 89.9441 | 94.8591 | 1449 | 338 | 1449 | 162 | 67 | 41.3580 | |
| gduggal-snapplat | INDEL | D1_5 | map_l125_m2_e0 | het | 85.2845 | 82.4607 | 88.3085 | 93.5494 | 630 | 134 | 710 | 94 | 20 | 21.2766 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 85.2828 | 75.9897 | 97.1657 | 76.5450 | 7064 | 2232 | 7062 | 206 | 204 | 99.0291 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 85.2814 | 84.5161 | 86.0606 | 80.3571 | 131 | 24 | 142 | 23 | 16 | 69.5652 | |
| gduggal-bwaplat | SNP | tv | map_l100_m2_e0 | het | 85.2808 | 74.8051 | 99.1683 | 86.8061 | 11802 | 3975 | 11804 | 99 | 19 | 19.1919 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 85.2750 | 89.1170 | 81.7505 | 62.2628 | 434 | 53 | 439 | 98 | 30 | 30.6122 | |
| qzeng-custom | INDEL | C6_15 | * | * | 85.2713 | 100.0000 | 74.3243 | 96.3973 | 7 | 0 | 55 | 19 | 1 | 5.2632 | |
| gduggal-bwavard | SNP | tv | map_l250_m2_e1 | het | 85.2663 | 97.9135 | 75.5126 | 92.7832 | 1924 | 41 | 1915 | 621 | 13 | 2.0934 | |
| gduggal-snapplat | INDEL | D1_5 | map_l125_m2_e1 | het | 85.2642 | 82.4675 | 88.2571 | 93.6289 | 635 | 135 | 714 | 95 | 20 | 21.0526 | |
| ckim-isaac | INDEL | I1_5 | map_l100_m0_e0 | het | 85.2632 | 74.5399 | 99.5902 | 88.6512 | 243 | 83 | 243 | 1 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | map_l100_m2_e0 | het | 85.2611 | 93.7500 | 78.1818 | 96.1295 | 45 | 3 | 43 | 12 | 4 | 33.3333 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 85.2596 | 74.3610 | 99.9015 | 32.1524 | 931 | 321 | 1014 | 1 | 1 | 100.0000 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 85.2592 | 83.7329 | 86.8421 | 25.4902 | 489 | 95 | 66 | 10 | 10 | 100.0000 | |
| qzeng-custom | INDEL | D1_5 | map_l150_m2_e1 | * | 85.2592 | 76.6067 | 96.1151 | 93.3295 | 596 | 182 | 668 | 27 | 23 | 85.1852 | |
| mlin-fermikit | INDEL | D1_5 | map_siren | het | 85.2572 | 76.0650 | 96.9765 | 74.1833 | 1732 | 545 | 1732 | 54 | 36 | 66.6667 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 85.2572 | 77.2727 | 95.0820 | 73.0088 | 102 | 30 | 116 | 6 | 4 | 66.6667 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 85.2537 | 79.1052 | 92.4385 | 53.9790 | 1662 | 439 | 1577 | 129 | 123 | 95.3488 | |
| gduggal-bwaplat | INDEL | I6_15 | * | hetalt | 85.2525 | 75.5818 | 97.7610 | 47.7759 | 6463 | 2088 | 6462 | 148 | 138 | 93.2432 | |
| jlack-gatk | INDEL | D16_PLUS | map_l100_m2_e1 | het | 85.2524 | 92.1569 | 79.3103 | 96.2435 | 47 | 4 | 46 | 12 | 4 | 33.3333 | |
| jlack-gatk | INDEL | D16_PLUS | map_l100_m2_e1 | hetalt | 85.2510 | 76.6667 | 96.0000 | 77.0642 | 23 | 7 | 24 | 1 | 0 | 0.0000 | |
| qzeng-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 85.2476 | 92.3077 | 79.1908 | 94.6916 | 132 | 11 | 137 | 36 | 9 | 25.0000 | |
| ndellapenna-hhga | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 85.2459 | 74.2857 | 100.0000 | 90.4762 | 26 | 9 | 26 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | D16_PLUS | map_l100_m0_e0 | * | 85.2459 | 92.8571 | 78.7879 | 95.5041 | 26 | 2 | 26 | 7 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | map_l100_m0_e0 | * | 85.2459 | 92.8571 | 78.7879 | 96.6734 | 26 | 2 | 26 | 7 | 0 | 0.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | map_siren | homalt | 85.2459 | 76.4706 | 96.2963 | 87.8378 | 26 | 8 | 26 | 1 | 1 | 100.0000 | |
| ciseli-custom | SNP | * | tech_badpromoters | * | 85.2439 | 94.9045 | 77.3684 | 48.6486 | 149 | 8 | 147 | 43 | 1 | 2.3256 | |
| ciseli-custom | SNP | * | map_l100_m2_e1 | * | 85.2411 | 82.0102 | 88.7370 | 71.8319 | 61292 | 13445 | 61099 | 7755 | 2048 | 26.4088 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 85.2372 | 96.7836 | 76.1521 | 58.2609 | 4303 | 143 | 4825 | 1511 | 1481 | 98.0146 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 85.2297 | 77.7913 | 94.2409 | 52.4466 | 4459 | 1273 | 4451 | 272 | 265 | 97.4265 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 85.2279 | 98.0433 | 75.3754 | 62.9512 | 6063 | 121 | 6073 | 1984 | 52 | 2.6210 | |
| qzeng-custom | SNP | tv | map_l125_m1_e0 | het | 85.2256 | 76.2789 | 96.5500 | 86.2555 | 7724 | 2402 | 7724 | 276 | 229 | 82.9710 | |
| gduggal-snapvard | INDEL | I1_5 | map_l150_m0_e0 | het | 85.2218 | 98.1132 | 75.3247 | 93.9718 | 104 | 2 | 174 | 57 | 14 | 24.5614 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 85.2201 | 76.0243 | 96.9466 | 64.6900 | 501 | 158 | 508 | 16 | 13 | 81.2500 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 85.2201 | 76.0243 | 96.9466 | 64.6900 | 501 | 158 | 508 | 16 | 13 | 81.2500 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 85.2163 | 78.1065 | 93.7500 | 66.1972 | 132 | 37 | 135 | 9 | 9 | 100.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 85.2150 | 75.8321 | 97.2477 | 53.3761 | 1481 | 472 | 1484 | 42 | 37 | 88.0952 | |