PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
2151-2200 / 86044 show all | |||||||||||||||
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 40.2067 | 39.4727 | 40.9685 | 65.1113 | 1048 | 1607 | 1066 | 1536 | 1023 | 66.6016 | |
| anovak-vg | SNP | ti | HG002complexvar | homalt | 98.2762 | 97.3918 | 99.1768 | 17.9619 | 188418 | 5046 | 185045 | 1536 | 1381 | 89.9089 | |
| asubramanian-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.2746 | 98.1228 | 98.4270 | 77.7694 | 92676 | 1773 | 96110 | 1536 | 892 | 58.0729 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 42.0732 | 33.1541 | 57.5573 | 69.3357 | 2096 | 4226 | 2083 | 1536 | 1445 | 94.0755 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 42.0732 | 33.1541 | 57.5573 | 69.3357 | 2096 | 4226 | 2083 | 1536 | 1445 | 94.0755 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 55.2770 | 84.4907 | 41.0749 | 86.9620 | 1095 | 201 | 1070 | 1535 | 61 | 3.9739 | |
| gduggal-snapvard | SNP | tv | map_l100_m0_e0 | * | 91.8069 | 96.6258 | 87.4458 | 78.2460 | 10710 | 374 | 10685 | 1534 | 85 | 5.5411 | |
| cchapple-custom | SNP | * | map_l125_m2_e1 | * | 96.9542 | 97.1463 | 96.7628 | 75.1056 | 45855 | 1347 | 45852 | 1534 | 347 | 22.6206 | |
| cchapple-custom | SNP | * | map_l125_m2_e1 | het | 96.1447 | 97.3583 | 94.9610 | 78.6712 | 28857 | 783 | 28890 | 1533 | 346 | 22.5701 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 53.6696 | 72.8723 | 42.4765 | 23.3535 | 137 | 51 | 1132 | 1533 | 1532 | 99.9348 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 66.8599 | 89.2948 | 53.4347 | 70.0637 | 1760 | 211 | 1758 | 1532 | 1441 | 94.0601 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 66.8599 | 89.2948 | 53.4347 | 70.0637 | 1760 | 211 | 1758 | 1532 | 1441 | 94.0601 | |
| gduggal-bwavard | SNP | tv | map_l100_m2_e0 | * | 95.9136 | 97.8069 | 94.0922 | 76.6349 | 24484 | 549 | 24400 | 1532 | 99 | 6.4621 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 49.8073 | 85.3306 | 35.1672 | 63.7131 | 826 | 142 | 831 | 1532 | 1487 | 97.0627 | |
| ciseli-custom | SNP | * | segdup | * | 96.6280 | 98.6033 | 94.7303 | 91.0474 | 27675 | 392 | 27504 | 1530 | 201 | 13.1373 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 81.8190 | 98.1137 | 70.1659 | 50.3295 | 3589 | 69 | 3596 | 1529 | 1471 | 96.2067 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 75.1577 | 77.7747 | 72.7110 | 36.3946 | 2845 | 813 | 4074 | 1529 | 1142 | 74.6893 | |
| gduggal-snapplat | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 90.1322 | 86.5088 | 94.0725 | 74.1670 | 24187 | 3772 | 24250 | 1528 | 165 | 10.7984 | |
| gduggal-bwavard | SNP | tv | map_l100_m2_e1 | het | 94.4719 | 98.1303 | 91.0764 | 80.3818 | 15640 | 298 | 15585 | 1527 | 90 | 5.8939 | |
| gduggal-snapvard | SNP | tv | map_l100_m0_e0 | het | 88.9755 | 97.1199 | 82.0913 | 81.3435 | 7014 | 208 | 6995 | 1526 | 80 | 5.2425 | |
| cchapple-custom | SNP | * | map_l125_m2_e0 | * | 96.9367 | 97.1235 | 96.7507 | 75.0489 | 45379 | 1344 | 45379 | 1524 | 347 | 22.7690 | |
| cchapple-custom | SNP | * | map_l125_m2_e0 | het | 96.1245 | 97.3395 | 94.9395 | 78.6207 | 28538 | 780 | 28573 | 1523 | 346 | 22.7183 | |
| ckim-gatk | SNP | * | map_siren | het | 95.8468 | 93.5653 | 98.2423 | 71.0090 | 85136 | 5855 | 85122 | 1523 | 109 | 7.1569 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 82.4233 | 87.4656 | 77.9307 | 54.2101 | 1905 | 273 | 5378 | 1523 | 867 | 56.9271 | |
| ciseli-custom | SNP | tv | map_l100_m0_e0 | * | 78.9086 | 74.1158 | 84.3641 | 75.9006 | 8215 | 2869 | 8212 | 1522 | 391 | 25.6899 | |
| gduggal-bwavard | SNP | tv | map_l100_m1_e0 | * | 95.8710 | 97.8083 | 94.0091 | 75.1618 | 23964 | 537 | 23883 | 1522 | 97 | 6.3732 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 87.7796 | 92.4607 | 83.5496 | 48.0211 | 7763 | 633 | 7725 | 1521 | 1474 | 96.9099 | |
| mlin-fermikit | INDEL | D6_15 | HG002compoundhet | het | 44.7280 | 80.2570 | 31.0032 | 43.1484 | 687 | 169 | 683 | 1520 | 1507 | 99.1447 | |
| ghariani-varprowl | INDEL | I16_PLUS | * | het | 73.3265 | 90.1398 | 61.7994 | 65.3970 | 2450 | 268 | 2459 | 1520 | 1502 | 98.8158 | |
| ghariani-varprowl | INDEL | I1_5 | HG002complexvar | het | 95.0596 | 98.1636 | 92.1459 | 60.4443 | 17854 | 334 | 17833 | 1520 | 1222 | 80.3947 | |
| gduggal-bwavard | SNP | tv | map_l100_m2_e0 | het | 94.4449 | 98.1175 | 91.0373 | 80.3474 | 15480 | 297 | 15429 | 1519 | 88 | 5.7933 | |
| bgallagher-sentieon | SNP | ti | * | * | 99.9476 | 99.9680 | 99.9272 | 17.4519 | 2084844 | 667 | 2084781 | 1519 | 117 | 7.7024 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 87.2533 | 88.7226 | 85.8319 | 38.8447 | 9189 | 1168 | 9178 | 1515 | 1403 | 92.6073 | |
| mlin-fermikit | SNP | * | HG002compoundhet | homalt | 92.6523 | 98.4233 | 87.5206 | 41.6338 | 10612 | 170 | 10618 | 1514 | 1310 | 86.5258 | |
| raldana-dualsentieon | INDEL | * | HG002compoundhet | * | 92.3506 | 90.1368 | 94.6759 | 61.0439 | 27005 | 2955 | 26887 | 1512 | 1502 | 99.3386 | |
| mlin-fermikit | INDEL | D1_5 | HG002compoundhet | het | 59.9144 | 80.4398 | 47.7343 | 63.4097 | 1390 | 338 | 1380 | 1511 | 1467 | 97.0880 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 78.7504 | 71.1059 | 88.2367 | 41.6720 | 10513 | 4272 | 11334 | 1511 | 1493 | 98.8087 | |
| gduggal-snapvard | INDEL | I16_PLUS | * | * | 2.3476 | 1.2075 | 42.0851 | 50.8200 | 77 | 6300 | 1098 | 1511 | 872 | 57.7101 | |
| jlack-gatk | INDEL | * | HG002compoundhet | homalt | 47.4306 | 99.5627 | 31.1304 | 79.5488 | 683 | 3 | 683 | 1511 | 1501 | 99.3382 | |
| 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 | SNP | * | map_l125_m0_e0 | * | 52.1003 | 37.9727 | 82.9686 | 58.9613 | 7361 | 12024 | 7356 | 1510 | 1338 | 88.6093 | |
| gduggal-bwavard | SNP | tv | map_l100_m1_e0 | het | 94.3634 | 98.1060 | 90.8959 | 79.1108 | 15125 | 292 | 15076 | 1510 | 87 | 5.7616 | |
| anovak-vg | INDEL | I6_15 | HG002complexvar | * | 48.0486 | 41.4858 | 57.0779 | 45.2877 | 1988 | 2804 | 2008 | 1510 | 1270 | 84.1060 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 64.4853 | 99.1348 | 47.7839 | 65.3135 | 1375 | 12 | 1380 | 1508 | 7 | 0.4642 | |
| gduggal-snapfb | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 4.2984 | 80.9524 | 2.2078 | 79.4447 | 34 | 8 | 34 | 1506 | 9 | 0.5976 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 25.8333 | 23.3145 | 28.9623 | 64.4415 | 619 | 2036 | 614 | 1506 | 1481 | 98.3400 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.2302 | 96.1664 | 96.2940 | 60.8295 | 36449 | 1453 | 39105 | 1505 | 1051 | 69.8339 | |
| anovak-vg | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 55.0866 | 65.0355 | 47.7778 | 51.5804 | 917 | 493 | 1376 | 1504 | 1123 | 74.6676 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 38.4337 | 40.5674 | 36.5133 | 81.1880 | 572 | 838 | 865 | 1504 | 300 | 19.9468 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 47.3830 | 86.3690 | 32.6467 | 86.8151 | 735 | 116 | 729 | 1504 | 49 | 3.2580 | |