PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
3201-3250 / 86044 show all | |||||||||||||||
| jpowers-varprowl | SNP | * | HG002compoundhet | * | 90.5976 | 92.3941 | 88.8696 | 48.7204 | 23858 | 1964 | 24057 | 3013 | 2048 | 67.9721 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.1088 | 97.1353 | 99.1021 | 39.2213 | 23837 | 703 | 23839 | 216 | 207 | 95.8333 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 77.1866 | 71.6422 | 83.6612 | 80.1878 | 23811 | 9425 | 27896 | 5448 | 1746 | 32.0485 | |
| gduggal-bwaplat | SNP | ti | map_l100_m2_e0 | het | 87.1494 | 77.7546 | 99.1265 | 83.6970 | 23810 | 6812 | 23832 | 210 | 63 | 30.0000 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.6511 | 96.9845 | 98.3269 | 41.1237 | 23800 | 740 | 23802 | 405 | 370 | 91.3580 | |
| ciseli-custom | SNP | * | map_l150_m2_e1 | * | 78.3942 | 73.8684 | 83.5109 | 81.5923 | 23793 | 8417 | 23753 | 4690 | 1163 | 24.7974 | |
| ciseli-custom | INDEL | * | HG002complexvar | homalt | 81.7869 | 88.0268 | 76.3731 | 56.3608 | 23791 | 3236 | 23555 | 7287 | 5323 | 73.0479 | |
| dgrover-gatk | INDEL | * | * | hetalt | 96.9073 | 94.2584 | 99.7094 | 58.4640 | 23788 | 1449 | 24018 | 70 | 68 | 97.1429 | |
| qzeng-custom | INDEL | * | HG002compoundhet | * | 82.2978 | 79.3825 | 85.4354 | 55.6867 | 23783 | 6177 | 36410 | 6207 | 4106 | 66.1511 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 92.6865 | 93.7182 | 91.6773 | 55.0764 | 23766 | 1593 | 23694 | 2151 | 1318 | 61.2738 | |
| gduggal-snapvard | SNP | tv | map_l100_m1_e0 | * | 94.4568 | 97.0001 | 92.0434 | 74.6951 | 23766 | 735 | 23680 | 2047 | 149 | 7.2789 | |
| mlin-fermikit | SNP | * | HG002compoundhet | * | 92.7673 | 91.9758 | 93.5725 | 42.5829 | 23750 | 2072 | 23759 | 1632 | 1332 | 81.6176 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 90.7450 | 84.0340 | 98.6211 | 62.7612 | 23748 | 4512 | 23816 | 333 | 53 | 15.9159 | |
| dgrover-gatk | INDEL | * | HG002compoundhet | hetalt | 96.9439 | 94.2772 | 99.7659 | 51.7927 | 23739 | 1441 | 23863 | 56 | 55 | 98.2143 | |
| astatham-gatk | INDEL | * | * | hetalt | 96.8001 | 94.0563 | 99.7088 | 58.1664 | 23737 | 1500 | 23968 | 70 | 69 | 98.5714 | |
| hfeng-pmm1 | INDEL | * | * | hetalt | 96.9096 | 94.0524 | 99.9458 | 58.8135 | 23736 | 1501 | 23960 | 13 | 12 | 92.3077 | |
| hfeng-pmm2 | INDEL | * | * | hetalt | 96.9055 | 94.0484 | 99.9416 | 58.8044 | 23735 | 1502 | 23954 | 14 | 12 | 85.7143 | |
| anovak-vg | SNP | * | map_l100_m2_e1 | homalt | 91.8309 | 85.3756 | 99.3422 | 61.4163 | 23731 | 4065 | 23410 | 155 | 133 | 85.8065 | |
| asubramanian-gatk | INDEL | I6_15 | * | * | 96.7639 | 95.5082 | 98.0531 | 53.5929 | 23708 | 1115 | 23721 | 471 | 428 | 90.8705 | |
| ndellapenna-hhga | INDEL | I6_15 | * | * | 96.5902 | 95.4921 | 97.7138 | 48.4477 | 23704 | 1119 | 23721 | 555 | 427 | 76.9369 | |
| mlin-fermikit | SNP | * | map_l125_m2_e1 | * | 63.8417 | 50.2034 | 87.6540 | 61.8934 | 23697 | 23505 | 23692 | 3337 | 2934 | 87.9233 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.0853 | 96.5607 | 99.6588 | 36.0406 | 23696 | 844 | 23662 | 81 | 58 | 71.6049 | |
| astatham-gatk | INDEL | * | HG002compoundhet | hetalt | 96.8345 | 94.0747 | 99.7612 | 51.5025 | 23688 | 1492 | 23812 | 57 | 56 | 98.2456 | |
| egarrison-hhga | INDEL | I6_15 | * | * | 96.6680 | 95.4155 | 97.9538 | 47.3697 | 23685 | 1138 | 23696 | 495 | 388 | 78.3838 | |
| ltrigg-rtg1 | INDEL | I6_15 | * | * | 97.4037 | 95.4115 | 99.4808 | 44.5038 | 23684 | 1139 | 23374 | 122 | 76 | 62.2951 | |
| raldana-dualsentieon | INDEL | I6_15 | * | * | 96.8613 | 95.4115 | 98.3558 | 49.7486 | 23684 | 1139 | 23689 | 396 | 375 | 94.6970 | |
| hfeng-pmm1 | INDEL | * | HG002compoundhet | hetalt | 96.9242 | 94.0469 | 99.9832 | 52.2156 | 23681 | 1499 | 23796 | 4 | 3 | 75.0000 | |
| hfeng-pmm2 | INDEL | * | HG002compoundhet | hetalt | 96.9221 | 94.0429 | 99.9832 | 52.1234 | 23680 | 1500 | 23795 | 4 | 2 | 50.0000 | |
| ckim-isaac | INDEL | * | HG002compoundhet | * | 82.5676 | 79.0154 | 86.4543 | 46.0363 | 23673 | 6287 | 22964 | 3598 | 3236 | 89.9389 | |
| hfeng-pmm3 | INDEL | * | * | hetalt | 96.7703 | 93.7869 | 99.9498 | 57.3944 | 23669 | 1568 | 23894 | 12 | 10 | 83.3333 | |
| qzeng-custom | SNP | * | map_l100_m0_e0 | * | 82.6366 | 72.0228 | 96.9194 | 83.3401 | 23653 | 9188 | 23407 | 744 | 630 | 84.6774 | |
| jlack-gatk | INDEL | I6_15 | * | * | 96.1308 | 95.2745 | 97.0025 | 53.1865 | 23650 | 1173 | 23656 | 731 | 625 | 85.4993 | |
| ciseli-custom | SNP | ti | map_l125_m2_e0 | * | 82.0578 | 78.1149 | 86.4200 | 77.2839 | 23636 | 6622 | 23616 | 3711 | 984 | 26.5158 | |
| cchapple-custom | INDEL | * | * | hetalt | 0.0000 | 93.6165 | 0.0000 | 0.0000 | 23626 | 1611 | 0 | 0 | 0 | ||
| jmaeng-gatk | SNP | * | map_l100_m0_e0 | * | 82.8475 | 71.9345 | 97.6638 | 84.1509 | 23624 | 9217 | 23620 | 565 | 48 | 8.4956 | |
| hfeng-pmm3 | INDEL | * | HG002compoundhet | hetalt | 96.7848 | 93.7847 | 99.9831 | 50.6733 | 23615 | 1565 | 23731 | 4 | 2 | 50.0000 | |
| ckim-gatk | SNP | * | map_l100_m0_e0 | * | 82.8691 | 71.9040 | 97.7802 | 83.9171 | 23614 | 9227 | 23610 | 536 | 48 | 8.9552 | |
| qzeng-custom | SNP | ti | map_l100_m1_e0 | het | 87.3398 | 78.8625 | 97.8592 | 80.1613 | 23613 | 6329 | 23496 | 514 | 414 | 80.5447 | |
| astatham-gatk | SNP | ti | map_l100_m2_e0 | het | 86.9897 | 77.0982 | 99.7928 | 74.7072 | 23609 | 7013 | 23602 | 49 | 23 | 46.9388 | |
| jli-custom | INDEL | * | * | hetalt | 96.4996 | 93.5214 | 99.6737 | 57.4952 | 23602 | 1635 | 23825 | 78 | 76 | 97.4359 | |
| gduggal-snapplat | SNP | tv | map_l100_m2_e1 | * | 94.9238 | 93.3394 | 96.5629 | 79.3964 | 23599 | 1684 | 23599 | 840 | 407 | 48.4524 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 83.5790 | 73.7247 | 96.4741 | 64.8422 | 23586 | 8406 | 23586 | 862 | 511 | 59.2807 | |
| cchapple-custom | INDEL | * | HG002compoundhet | hetalt | 0.0000 | 93.6418 | 0.0000 | 0.0000 | 23579 | 1601 | 0 | 0 | 0 | ||
| jli-custom | INDEL | * | HG002compoundhet | hetalt | 96.5598 | 93.5624 | 99.7556 | 52.2097 | 23559 | 1621 | 23678 | 58 | 57 | 98.2759 | |
| rpoplin-dv42 | INDEL | I6_15 | * | * | 96.3018 | 94.7670 | 97.8872 | 49.6208 | 23524 | 1299 | 23536 | 508 | 491 | 96.6535 | |
| ciseli-custom | SNP | * | map_l150_m2_e0 | * | 78.3493 | 73.8101 | 83.4833 | 81.5713 | 23510 | 8342 | 23473 | 4644 | 1150 | 24.7631 | |
| ciseli-custom | SNP | ti | map_l100_m1_e0 | het | 83.0208 | 78.5018 | 88.0918 | 73.6464 | 23505 | 6437 | 23480 | 3174 | 86 | 2.7095 | |
| ciseli-custom | SNP | tv | map_siren | het | 84.4100 | 82.1595 | 86.7874 | 65.3031 | 23505 | 5104 | 23489 | 3576 | 93 | 2.6007 | |
| anovak-vg | SNP | * | map_l100_m2_e0 | homalt | 91.7943 | 85.3141 | 99.3397 | 61.4498 | 23481 | 4042 | 23170 | 154 | 133 | 86.3636 | |
| ckim-vqsr | SNP | ti | map_l100_m2_e1 | het | 85.9506 | 75.8301 | 99.1886 | 83.8404 | 23477 | 7483 | 23472 | 192 | 12 | 6.2500 | |