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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
70551-70600 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 80.2391 | 68.1335 | 97.5758 | 51.1834 | 449 | 210 | 644 | 16 | 13 | 81.2500 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 66.9540 | 81.9672 | 56.5891 | 68.9157 | 50 | 11 | 146 | 112 | 91 | 81.2500 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 80.2391 | 68.1335 | 97.5758 | 51.1834 | 449 | 210 | 644 | 16 | 13 | 81.2500 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 77.7525 | 64.8746 | 97.0093 | 45.7404 | 181 | 98 | 519 | 16 | 13 | 81.2500 | |
| qzeng-custom | SNP | tv | map_l250_m1_e0 | * | 76.9830 | 65.9992 | 92.3526 | 95.3560 | 1747 | 900 | 1739 | 144 | 117 | 81.2500 | |
| mlin-fermikit | INDEL | D1_5 | segdup | het | 97.3152 | 96.9653 | 97.6676 | 91.5120 | 671 | 21 | 670 | 16 | 13 | 81.2500 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.2751 | 99.6037 | 98.9488 | 87.5654 | 1508 | 6 | 1506 | 16 | 13 | 81.2500 | |
| rpoplin-dv42 | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.6705 | 99.6705 | 99.6705 | 66.2895 | 4840 | 16 | 4840 | 16 | 13 | 81.2500 | |
| rpoplin-dv42 | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.6119 | 99.7409 | 99.4832 | 68.3306 | 3080 | 8 | 3080 | 16 | 13 | 81.2500 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.3679 | 99.4491 | 99.2868 | 52.6423 | 6679 | 37 | 6682 | 48 | 39 | 81.2500 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.9783 | 95.8147 | 98.1704 | 65.8532 | 1717 | 75 | 1717 | 32 | 26 | 81.2500 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.0658 | 96.3042 | 97.8396 | 70.2140 | 3622 | 139 | 3623 | 80 | 65 | 81.2500 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.0658 | 96.3042 | 97.8396 | 70.2140 | 3622 | 139 | 3623 | 80 | 65 | 81.2500 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 76.0523 | 82.0000 | 70.9091 | 81.7276 | 41 | 9 | 39 | 16 | 13 | 81.2500 | |
| jpowers-varprowl | INDEL | D1_5 | segdup | * | 91.6633 | 90.7525 | 92.5926 | 94.5780 | 1001 | 102 | 1000 | 80 | 65 | 81.2500 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 87.2063 | 83.5000 | 91.2568 | 61.1465 | 167 | 33 | 167 | 16 | 13 | 81.2500 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 87.0329 | 82.8169 | 91.7012 | 56.1220 | 882 | 183 | 884 | 80 | 65 | 81.2500 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.3659 | 98.8427 | 99.8947 | 68.5558 | 30405 | 356 | 30350 | 32 | 26 | 81.2500 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.4163 | 99.3280 | 99.5048 | 58.5822 | 3252 | 22 | 3215 | 16 | 13 | 81.2500 | |
| qzeng-custom | SNP | tv | map_l125_m2_e0 | het | 85.5513 | 76.7765 | 96.5908 | 86.8303 | 8017 | 2425 | 8018 | 283 | 230 | 81.2721 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 92.6354 | 91.1441 | 94.1762 | 35.9848 | 16642 | 1617 | 17303 | 1070 | 870 | 81.3084 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 80.1154 | 71.9755 | 90.3312 | 67.7249 | 2707 | 1054 | 2700 | 289 | 235 | 81.3149 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 80.1154 | 71.9755 | 90.3312 | 67.7249 | 2707 | 1054 | 2700 | 289 | 235 | 81.3149 | |
| jpowers-varprowl | INDEL | D1_5 | segdup | het | 93.5461 | 97.3988 | 89.9866 | 95.0659 | 674 | 18 | 674 | 75 | 61 | 81.3333 | |
| rpoplin-dv42 | SNP | * | HG002compoundhet | * | 99.6493 | 99.5895 | 99.7091 | 40.7188 | 25716 | 106 | 25707 | 75 | 61 | 81.3333 | |
| qzeng-custom | SNP | tv | map_l125_m2_e1 | het | 85.6436 | 76.9070 | 96.6195 | 86.8249 | 8116 | 2437 | 8117 | 284 | 231 | 81.3380 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 40.8570 | 44.3272 | 37.8906 | 67.8795 | 168 | 211 | 291 | 477 | 388 | 81.3417 | |
| hfeng-pmm2 | SNP | ti | * | homalt | 99.9915 | 99.9903 | 99.9927 | 16.7561 | 802960 | 78 | 802952 | 59 | 48 | 81.3559 | |
| anovak-vg | INDEL | I1_5 | HG002compoundhet | homalt | 40.4620 | 88.4498 | 26.2307 | 64.1465 | 291 | 38 | 1071 | 3012 | 2451 | 81.3745 | |
| ciseli-custom | INDEL | I1_5 | map_l100_m0_e0 | * | 58.4054 | 52.3020 | 66.1215 | 87.8959 | 284 | 259 | 283 | 145 | 118 | 81.3793 | |
| ciseli-custom | SNP | * | map_l125_m0_e0 | homalt | 85.9540 | 85.1609 | 86.7620 | 68.6495 | 5716 | 996 | 5702 | 870 | 708 | 81.3793 | |
| mlin-fermikit | SNP | * | * | * | 98.8629 | 98.2311 | 99.5029 | 16.3803 | 3000602 | 54032 | 3000527 | 14990 | 12200 | 81.3876 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 97.0354 | 97.2932 | 96.7790 | 40.3219 | 1294 | 36 | 1292 | 43 | 35 | 81.3953 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 86.5921 | 77.7149 | 97.7589 | 44.5846 | 5632 | 1615 | 5627 | 129 | 105 | 81.3953 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 92.0493 | 86.2286 | 98.7126 | 25.5959 | 3281 | 524 | 3297 | 43 | 35 | 81.3953 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.4673 | 97.4995 | 99.4544 | 67.8523 | 15675 | 402 | 15676 | 86 | 70 | 81.3953 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.4673 | 97.4995 | 99.4544 | 67.8523 | 15675 | 402 | 15676 | 86 | 70 | 81.3953 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 78.9525 | 73.1884 | 85.7021 | 53.5402 | 303 | 111 | 1001 | 167 | 136 | 81.4371 | |
| gduggal-snapvard | INDEL | I6_15 | map_l100_m2_e0 | * | 60.8455 | 60.3448 | 61.3546 | 79.4431 | 70 | 46 | 154 | 97 | 79 | 81.4433 | |
| gduggal-snapvard | INDEL | I6_15 | map_l100_m2_e0 | het | 69.9557 | 88.5246 | 57.8261 | 79.7357 | 54 | 7 | 133 | 97 | 79 | 81.4433 | |
| gduggal-snapvard | INDEL | I6_15 | map_l100_m2_e1 | * | 60.9208 | 60.3448 | 61.5079 | 79.7590 | 70 | 46 | 155 | 97 | 79 | 81.4433 | |
| gduggal-snapvard | INDEL | I6_15 | map_l100_m2_e1 | het | 70.0891 | 88.5246 | 58.0087 | 80.0690 | 54 | 7 | 134 | 97 | 79 | 81.4433 | |
| ndellapenna-hhga | INDEL | * | HG002compoundhet | homalt | 54.9045 | 96.9388 | 38.2979 | 70.2430 | 665 | 21 | 666 | 1073 | 874 | 81.4539 | |
| qzeng-custom | SNP | ti | map_l125_m2_e0 | het | 83.1453 | 72.9498 | 96.6538 | 86.6306 | 13770 | 5106 | 13720 | 475 | 387 | 81.4737 | |
| qzeng-custom | SNP | ti | map_l125_m2_e1 | het | 83.2669 | 73.1126 | 96.6968 | 86.6188 | 13955 | 5132 | 13905 | 475 | 387 | 81.4737 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.8303 | 98.7700 | 98.8907 | 49.1114 | 2409 | 30 | 2407 | 27 | 22 | 81.4815 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 78.1075 | 64.7471 | 98.4152 | 46.2255 | 10816 | 5889 | 10060 | 162 | 132 | 81.4815 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 78.1075 | 64.7471 | 98.4152 | 46.2255 | 10816 | 5889 | 10060 | 162 | 132 | 81.4815 | |
| ndellapenna-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 95.1002 | 96.1712 | 94.0529 | 81.2552 | 427 | 17 | 427 | 27 | 22 | 81.4815 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 88.3912 | 83.6820 | 93.6620 | 67.7273 | 400 | 78 | 399 | 27 | 22 | 81.4815 | |