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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
41951-42000 / 86044 show all | |||||||||||||||
| bgallagher-sentieon | INDEL | I16_PLUS | map_l100_m2_e0 | * | 90.5660 | 92.3077 | 88.8889 | 96.0294 | 24 | 2 | 24 | 3 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | map_l100_m2_e1 | * | 90.5660 | 92.3077 | 88.8889 | 96.0469 | 24 | 2 | 24 | 3 | 0 | 0.0000 | |
| cchapple-custom | INDEL | C16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 0.0000 | 0.0000 | 88.8889 | 97.4359 | 0 | 0 | 8 | 1 | 1 | 100.0000 | |
| astatham-gatk | INDEL | D16_PLUS | map_l150_m2_e0 | het | 94.1176 | 100.0000 | 88.8889 | 96.6102 | 16 | 0 | 16 | 2 | 0 | 0.0000 | |
| astatham-gatk | INDEL | D16_PLUS | map_l150_m2_e1 | het | 94.1176 | 100.0000 | 88.8889 | 96.6543 | 16 | 0 | 16 | 2 | 0 | 0.0000 | |
| astatham-gatk | INDEL | I16_PLUS | map_l100_m2_e0 | het | 88.8889 | 88.8889 | 88.8889 | 95.1482 | 16 | 2 | 16 | 2 | 1 | 50.0000 | |
| astatham-gatk | INDEL | I16_PLUS | map_l100_m2_e1 | het | 88.8889 | 88.8889 | 88.8889 | 95.1613 | 16 | 2 | 16 | 2 | 1 | 50.0000 | |
| astatham-gatk | INDEL | I16_PLUS | map_l125_m1_e0 | het | 88.8889 | 88.8889 | 88.8889 | 96.0699 | 8 | 1 | 8 | 1 | 0 | 0.0000 | |
| astatham-gatk | INDEL | I16_PLUS | map_l125_m2_e0 | het | 88.8889 | 88.8889 | 88.8889 | 96.6543 | 8 | 1 | 8 | 1 | 0 | 0.0000 | |
| astatham-gatk | INDEL | I16_PLUS | map_l125_m2_e1 | het | 88.8889 | 88.8889 | 88.8889 | 96.6667 | 8 | 1 | 8 | 1 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | map_l150_m2_e0 | het | 94.1176 | 100.0000 | 88.8889 | 96.3928 | 16 | 0 | 16 | 2 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | map_l150_m2_e1 | het | 94.1176 | 100.0000 | 88.8889 | 96.4427 | 16 | 0 | 16 | 2 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | segdup | * | 92.5620 | 96.5517 | 88.8889 | 96.3287 | 56 | 2 | 56 | 7 | 2 | 28.5714 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 90.4147 | 91.9985 | 88.8845 | 55.6709 | 14763 | 1284 | 15793 | 1975 | 866 | 43.8481 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.0177 | 97.5624 | 88.8776 | 88.4848 | 1721 | 43 | 1742 | 218 | 16 | 7.3395 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 76.4134 | 67.0154 | 88.8773 | 44.0708 | 9224 | 4540 | 2557 | 320 | 196 | 61.2500 | |
| mlin-fermikit | INDEL | D1_5 | map_l100_m1_e0 | * | 76.7469 | 67.5325 | 88.8730 | 76.4647 | 1248 | 600 | 1246 | 156 | 136 | 87.1795 | |
| mlin-fermikit | INDEL | D16_PLUS | * | * | 87.3801 | 85.9375 | 88.8720 | 69.7132 | 5830 | 954 | 5846 | 732 | 623 | 85.1093 | |
| jpowers-varprowl | SNP | * | HG002compoundhet | * | 90.5976 | 92.3941 | 88.8696 | 48.7204 | 23858 | 1964 | 24057 | 3013 | 2048 | 67.9721 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 58.3031 | 43.3824 | 88.8679 | 72.0464 | 472 | 616 | 471 | 59 | 57 | 96.6102 | |
| mlin-fermikit | SNP | tv | map_l100_m1_e0 | * | 70.4651 | 58.3772 | 88.8661 | 53.8051 | 14303 | 10198 | 14295 | 1791 | 1587 | 88.6097 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 92.6929 | 96.8651 | 88.8653 | 43.0098 | 4604 | 149 | 4597 | 576 | 566 | 98.2639 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 90.3594 | 91.9064 | 88.8636 | 53.3705 | 5144 | 453 | 4684 | 587 | 468 | 79.7274 | |
| gduggal-snapplat | INDEL | D1_5 | HG002complexvar | * | 83.2560 | 78.3158 | 88.8615 | 63.4989 | 25621 | 7094 | 29885 | 3746 | 907 | 24.2125 | |
| ckim-gatk | INDEL | * | HG002compoundhet | het | 93.4586 | 98.5589 | 88.8602 | 79.6039 | 4035 | 59 | 3789 | 475 | 465 | 97.8947 | |
| ckim-gatk | INDEL | D1_5 | map_l150_m0_e0 | * | 93.6362 | 98.9619 | 88.8545 | 93.9851 | 286 | 3 | 287 | 36 | 1 | 2.7778 | |
| gduggal-snapplat | INDEL | * | map_l150_m2_e0 | * | 80.2426 | 73.1534 | 88.8532 | 94.8529 | 1030 | 378 | 1108 | 139 | 20 | 14.3885 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 88.1593 | 87.4776 | 88.8518 | 37.5644 | 21467 | 3073 | 21551 | 2704 | 2453 | 90.7175 | |
| mlin-fermikit | SNP | ti | map_l125_m2_e1 | * | 64.3036 | 50.3876 | 88.8389 | 61.3583 | 15403 | 15166 | 15402 | 1935 | 1705 | 88.1137 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.6375 | 98.9848 | 88.8383 | 60.2115 | 1170 | 12 | 1170 | 147 | 145 | 98.6395 | |
| gduggal-snapplat | INDEL | * | map_l150_m2_e1 | * | 80.1656 | 73.0368 | 88.8365 | 94.8724 | 1051 | 388 | 1130 | 142 | 20 | 14.0845 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 94.0198 | 99.8511 | 88.8320 | 71.0242 | 2682 | 4 | 2601 | 327 | 6 | 1.8349 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 90.5655 | 92.3733 | 88.8270 | 56.6366 | 16460 | 1359 | 15479 | 1947 | 1601 | 82.2291 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 83.1329 | 78.1250 | 88.8268 | 67.2461 | 225 | 63 | 318 | 40 | 25 | 62.5000 | |
| ghariani-varprowl | INDEL | I1_5 | map_l150_m2_e1 | het | 93.0931 | 97.7918 | 88.8252 | 94.2352 | 310 | 7 | 310 | 39 | 9 | 23.0769 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 84.2971 | 80.2083 | 88.8252 | 77.8834 | 308 | 76 | 310 | 39 | 36 | 92.3077 | |
| eyeh-varpipe | INDEL | C1_5 | HG002complexvar | hetalt | 0.0000 | 0.0000 | 88.8235 | 85.1744 | 0 | 0 | 453 | 57 | 54 | 94.7368 | |
| ghariani-varprowl | INDEL | I1_5 | map_l150_m2_e0 | het | 93.0663 | 97.7346 | 88.8235 | 94.2157 | 302 | 7 | 302 | 38 | 9 | 23.6842 | |
| gduggal-snapplat | INDEL | * | map_l125_m0_e0 | * | 79.7334 | 72.3356 | 88.8166 | 94.7534 | 638 | 244 | 683 | 86 | 13 | 15.1163 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 75.7737 | 66.0714 | 88.8158 | 57.1831 | 407 | 209 | 405 | 51 | 47 | 92.1569 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.1817 | 76.4706 | 88.8147 | 52.8718 | 533 | 164 | 532 | 67 | 66 | 98.5075 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.1817 | 76.4706 | 88.8147 | 52.8718 | 533 | 164 | 532 | 67 | 66 | 98.5075 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 93.8264 | 99.4530 | 88.8023 | 79.5703 | 909 | 5 | 912 | 115 | 1 | 0.8696 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 85.3739 | 82.2047 | 88.7974 | 65.9324 | 2185 | 473 | 2156 | 272 | 162 | 59.5588 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.4540 | 98.6270 | 88.7967 | 40.4203 | 431 | 6 | 428 | 54 | 54 | 100.0000 | |
| mlin-fermikit | INDEL | I16_PLUS | * | * | 82.9403 | 77.8109 | 88.7937 | 66.6528 | 4962 | 1415 | 4976 | 628 | 607 | 96.6561 | |
| eyeh-varpipe | SNP | tv | map_l150_m0_e0 | het | 93.9083 | 99.6483 | 88.7937 | 84.1222 | 2833 | 10 | 2797 | 353 | 7 | 1.9830 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 77.4939 | 68.7532 | 88.7808 | 66.4783 | 1329 | 604 | 1369 | 173 | 122 | 70.5202 | |
| mlin-fermikit | SNP | ti | map_l125_m2_e0 | * | 64.0610 | 50.1091 | 88.7802 | 61.1948 | 15162 | 15096 | 15161 | 1916 | 1690 | 88.2046 | |
| gduggal-snapvard | SNP | * | map_l150_m2_e1 | * | 92.4051 | 96.3396 | 88.7794 | 82.5294 | 31031 | 1179 | 30628 | 3871 | 287 | 7.4141 | |