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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
66251-66300 / 86044 show all | |||||||||||||||
| egarrison-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.9065 | 89.6373 | 94.2935 | 88.6839 | 346 | 40 | 347 | 21 | 14 | 66.6667 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.9430 | 98.7588 | 99.1279 | 78.7129 | 2387 | 30 | 2387 | 21 | 17 | 80.9524 | |
| egarrison-hhga | SNP | tv | HG002compoundhet | het | 98.2001 | 96.8971 | 99.5386 | 52.4849 | 4528 | 145 | 4530 | 21 | 10 | 47.6190 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.3471 | 99.5816 | 97.1429 | 61.6188 | 714 | 3 | 714 | 21 | 20 | 95.2381 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8718 | 99.8265 | 99.9171 | 55.1617 | 25315 | 44 | 25318 | 21 | 16 | 76.1905 | |
| ckim-isaac | INDEL | D16_PLUS | HG002complexvar | homalt | 68.6813 | 56.0554 | 88.6486 | 67.8819 | 162 | 127 | 164 | 21 | 5 | 23.8095 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 87.7895 | 79.0971 | 98.6283 | 41.6540 | 1279 | 338 | 1510 | 21 | 19 | 90.4762 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 90.9557 | 84.7716 | 98.1132 | 33.9074 | 1002 | 180 | 1092 | 21 | 18 | 85.7143 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 68.3908 | 54.5894 | 91.5323 | 59.3443 | 226 | 188 | 227 | 21 | 15 | 71.4286 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 70.1745 | 56.1567 | 93.5185 | 58.4615 | 301 | 235 | 303 | 21 | 15 | 71.4286 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.7253 | 99.7898 | 99.6609 | 56.0602 | 6171 | 13 | 6171 | 21 | 2 | 9.5238 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6445 | 99.8219 | 99.4677 | 58.2805 | 3924 | 7 | 3924 | 21 | 2 | 9.5238 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6370 | 99.4177 | 99.8572 | 53.8488 | 14684 | 86 | 14686 | 21 | 13 | 61.9048 | |
| egarrison-hhga | INDEL | I16_PLUS | HG002complexvar | het | 93.2920 | 90.2256 | 96.5742 | 65.0712 | 600 | 65 | 592 | 21 | 7 | 33.3333 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 82.8549 | 77.7251 | 88.7097 | 61.5702 | 164 | 47 | 165 | 21 | 20 | 95.2381 | |
| ckim-isaac | SNP | * | map_l250_m2_e0 | * | 64.4492 | 47.6728 | 99.4444 | 90.9774 | 3759 | 4126 | 3759 | 21 | 4 | 19.0476 | |
| ckim-isaac | SNP | * | map_l250_m2_e1 | * | 64.5467 | 47.7776 | 99.4527 | 91.0189 | 3816 | 4171 | 3816 | 21 | 4 | 19.0476 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.7398 | 94.7570 | 98.8075 | 51.0833 | 1735 | 96 | 1740 | 21 | 1 | 4.7619 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 96.4383 | 94.0202 | 98.9840 | 57.6608 | 2044 | 130 | 2046 | 21 | 14 | 66.6667 | |
| ckim-isaac | SNP | tv | map_l150_m1_e0 | * | 67.1487 | 50.6415 | 99.6215 | 77.0250 | 5526 | 5386 | 5527 | 21 | 7 | 33.3333 | |
| ckim-isaac | SNP | tv | map_l150_m2_e0 | het | 71.5812 | 55.9018 | 99.4848 | 80.5969 | 4054 | 3198 | 4055 | 21 | 6 | 28.5714 | |
| ckim-isaac | SNP | tv | map_l150_m2_e1 | het | 71.6314 | 55.9608 | 99.4920 | 80.5897 | 4112 | 3236 | 4113 | 21 | 6 | 28.5714 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.5326 | 98.2332 | 92.9766 | 69.7368 | 278 | 5 | 278 | 21 | 21 | 100.0000 | |
| dgrover-gatk | SNP | * | map_l100_m1_e0 | homalt | 99.7105 | 99.5001 | 99.9219 | 58.2002 | 26868 | 135 | 26868 | 21 | 16 | 76.1905 | |
| dgrover-gatk | SNP | * | map_l100_m2_e0 | homalt | 99.7105 | 99.4986 | 99.9234 | 60.6643 | 27385 | 138 | 27385 | 21 | 16 | 76.1905 | |
| dgrover-gatk | SNP | * | map_l100_m2_e1 | homalt | 99.7116 | 99.4999 | 99.9241 | 60.6444 | 27657 | 139 | 27657 | 21 | 16 | 76.1905 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.4814 | 99.4694 | 99.4934 | 82.7155 | 4124 | 22 | 4124 | 21 | 7 | 33.3333 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.2822 | 99.3573 | 99.2072 | 83.9930 | 2628 | 17 | 2628 | 21 | 7 | 33.3333 | |
| dgrover-gatk | SNP | tv | map_l250_m0_e0 | het | 96.5998 | 96.8531 | 96.3478 | 94.1784 | 554 | 18 | 554 | 21 | 2 | 9.5238 | |
| egarrison-hhga | INDEL | * | map_l125_m0_e0 | * | 97.3294 | 97.0522 | 97.6082 | 98.7845 | 856 | 26 | 857 | 21 | 7 | 33.3333 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.1090 | 96.6453 | 99.6177 | 51.2288 | 5733 | 199 | 5733 | 22 | 20 | 90.9091 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.9105 | 98.7393 | 99.0822 | 76.8986 | 2428 | 31 | 2375 | 22 | 13 | 59.0909 | |
| egarrison-hhga | INDEL | * | map_l150_m1_e0 | het | 97.3128 | 97.1930 | 97.4329 | 89.1766 | 831 | 24 | 835 | 22 | 6 | 27.2727 | |
| egarrison-hhga | INDEL | * | map_l150_m2_e0 | het | 97.4639 | 97.3510 | 97.5771 | 89.7297 | 882 | 24 | 886 | 22 | 6 | 27.2727 | |
| egarrison-hhga | INDEL | * | map_l150_m2_e1 | het | 97.5133 | 97.4026 | 97.6242 | 89.7600 | 900 | 24 | 904 | 22 | 6 | 27.2727 | |
| ckim-isaac | INDEL | D16_PLUS | * | homalt | 88.9191 | 81.0875 | 98.4252 | 54.0612 | 1372 | 320 | 1375 | 22 | 6 | 27.2727 | |
| ckim-isaac | INDEL | D1_5 | map_l100_m1_e0 | * | 83.8870 | 73.1061 | 98.3977 | 82.4582 | 1351 | 497 | 1351 | 22 | 10 | 45.4545 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 82.4180 | 70.7101 | 98.7723 | 34.9310 | 1673 | 693 | 1770 | 22 | 18 | 81.8182 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 90.8242 | 84.7922 | 97.7800 | 34.6306 | 959 | 172 | 969 | 22 | 17 | 77.2727 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 94.1071 | 92.2942 | 95.9927 | 56.4631 | 527 | 44 | 527 | 22 | 15 | 68.1818 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.5105 | 95.6899 | 99.4017 | 30.5702 | 3641 | 164 | 3655 | 22 | 22 | 100.0000 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 94.2276 | 93.3190 | 95.1542 | 68.0956 | 433 | 31 | 432 | 22 | 16 | 72.7273 | |
| egarrison-hhga | SNP | ti | map_l150_m0_e0 | * | 99.1041 | 98.4989 | 99.7167 | 79.0350 | 7743 | 118 | 7743 | 22 | 10 | 45.4545 | |
| egarrison-hhga | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.2141 | 97.8892 | 98.5411 | 67.8190 | 1484 | 32 | 1486 | 22 | 10 | 45.4545 | |
| egarrison-hhga | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.7140 | 98.1541 | 99.2803 | 63.6850 | 3031 | 57 | 3035 | 22 | 10 | 45.4545 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 21.4286 | 90.0000 | 0 | 0 | 6 | 22 | 5 | 22.7273 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 0.0000 | 0.0000 | 71.4286 | 95.0323 | 0 | 0 | 55 | 22 | 16 | 72.7273 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5603 | 99.5507 | 99.5700 | 75.2360 | 5096 | 23 | 5094 | 22 | 10 | 45.4545 | |
| dgrover-gatk | INDEL | * | map_l150_m1_e0 | het | 97.6722 | 97.8947 | 97.4508 | 91.3510 | 837 | 18 | 841 | 22 | 3 | 13.6364 | |
| dgrover-gatk | INDEL | * | map_l150_m2_e0 | het | 97.8027 | 98.0132 | 97.5930 | 91.8342 | 888 | 18 | 892 | 22 | 3 | 13.6364 | |