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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
8351-8400 / 86044 show all | |||||||||||||||
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 95.1163 | 94.9599 | 95.2731 | 65.4635 | 3674 | 195 | 3628 | 180 | 177 | 98.3333 | |
| jlack-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.5569 | 99.7479 | 97.3939 | 48.1612 | 6727 | 17 | 6727 | 180 | 3 | 1.6667 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5017 | 97.6560 | 99.3622 | 69.3191 | 28039 | 673 | 28040 | 180 | 4 | 2.2222 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5017 | 97.6560 | 99.3622 | 69.3191 | 28039 | 673 | 28040 | 180 | 4 | 2.2222 | |
| anovak-vg | INDEL | * | map_l150_m2_e0 | homalt | 76.2649 | 84.1996 | 69.6970 | 88.0938 | 405 | 76 | 414 | 180 | 160 | 88.8889 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.9978 | 94.1236 | 97.9483 | 47.9502 | 6503 | 406 | 8593 | 180 | 169 | 93.8889 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.0736 | 97.1040 | 99.0627 | 73.0656 | 19012 | 567 | 19025 | 180 | 21 | 11.6667 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.0736 | 97.1040 | 99.0627 | 73.0656 | 19012 | 567 | 19025 | 180 | 21 | 11.6667 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.5812 | 92.6383 | 98.7173 | 34.2439 | 12999 | 1033 | 13853 | 180 | 164 | 91.1111 | |
| bgallagher-sentieon | SNP | tv | map_l125_m2_e0 | het | 98.8667 | 99.4350 | 98.3049 | 76.2296 | 10383 | 59 | 10381 | 179 | 22 | 12.2905 | |
| bgallagher-sentieon | SNP | tv | map_l125_m2_e1 | het | 98.8786 | 99.4409 | 98.3226 | 76.2835 | 10494 | 59 | 10492 | 179 | 22 | 12.2905 | |
| jpowers-varprowl | SNP | * | map_siren | homalt | 99.5443 | 99.4144 | 99.6746 | 55.8957 | 54833 | 323 | 54834 | 179 | 129 | 72.0670 | |
| jpowers-varprowl | SNP | tv | map_l250_m2_e1 | * | 94.2423 | 94.5816 | 93.9053 | 92.0320 | 2758 | 158 | 2758 | 179 | 36 | 20.1117 | |
| ltrigg-rtg1 | SNP | * | * | homalt | 99.9664 | 99.9480 | 99.9848 | 17.4153 | 1179543 | 614 | 1179482 | 179 | 154 | 86.0335 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 77.9748 | 79.3985 | 76.6013 | 76.6697 | 528 | 137 | 586 | 179 | 170 | 94.9721 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 59.0700 | 91.8519 | 43.5331 | 43.8938 | 124 | 11 | 138 | 179 | 177 | 98.8827 | |
| dgrover-gatk | SNP | tv | map_siren | * | 99.6255 | 99.6408 | 99.6103 | 59.7727 | 45765 | 165 | 45757 | 179 | 35 | 19.5531 | |
| gduggal-bwafb | SNP | tv | map_l150_m2_e1 | het | 98.0150 | 98.4486 | 97.5853 | 79.8450 | 7234 | 114 | 7234 | 179 | 33 | 18.4358 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 90.4913 | 83.3097 | 99.0278 | 77.4266 | 18244 | 3655 | 18233 | 179 | 151 | 84.3575 | |
| gduggal-bwavard | SNP | * | segdup | het | 98.1974 | 97.4649 | 98.9410 | 94.6418 | 16878 | 439 | 16724 | 179 | 23 | 12.8492 | |
| gduggal-bwafb | SNP | * | map_l150_m0_e0 | het | 97.7971 | 97.8463 | 97.7479 | 82.8433 | 7769 | 171 | 7769 | 179 | 54 | 30.1676 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 18.8667 | 23.9437 | 15.5660 | 65.0165 | 17 | 54 | 33 | 179 | 132 | 73.7430 | |
| hfeng-pmm2 | SNP | * | map_l150_m0_e0 | * | 98.8358 | 99.1523 | 98.5214 | 81.5215 | 11930 | 102 | 11927 | 179 | 19 | 10.6145 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 94.4513 | 96.2447 | 92.7236 | 43.0556 | 2281 | 89 | 2281 | 179 | 171 | 95.5307 | |
| qzeng-custom | INDEL | I6_15 | map_l100_m1_e0 | * | 56.7042 | 73.6842 | 46.0843 | 75.6598 | 84 | 30 | 153 | 179 | 4 | 2.2346 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 63.1468 | 57.9627 | 69.3493 | 39.7938 | 404 | 293 | 405 | 179 | 173 | 96.6480 | |
| mlin-fermikit | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.1226 | 96.8012 | 99.4807 | 58.3241 | 34286 | 1133 | 34292 | 179 | 13 | 7.2626 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.2575 | 98.7987 | 99.7206 | 70.8721 | 63657 | 774 | 63532 | 178 | 101 | 56.7416 | |
| ndellapenna-hhga | INDEL | I16_PLUS | HG002compoundhet | * | 86.2940 | 82.1745 | 90.8483 | 50.5089 | 1761 | 382 | 1767 | 178 | 133 | 74.7191 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 80.7110 | 78.7684 | 82.7519 | 62.8376 | 857 | 231 | 854 | 178 | 178 | 100.0000 | |
| gduggal-bwafb | SNP | tv | map_l150_m2_e0 | het | 97.9956 | 98.4280 | 97.5670 | 79.8007 | 7138 | 114 | 7138 | 178 | 33 | 18.5393 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 81.8315 | 84.1019 | 79.6804 | 71.0030 | 693 | 131 | 698 | 178 | 114 | 64.0449 | |
| jli-custom | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4538 | 99.1867 | 99.7223 | 73.1991 | 63907 | 524 | 63923 | 178 | 156 | 87.6404 | |
| ckim-gatk | SNP | ti | map_l125_m0_e0 | het | 80.6416 | 69.0185 | 96.9723 | 90.3096 | 5703 | 2560 | 5701 | 178 | 22 | 12.3596 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 31.1207 | 23.8636 | 44.7205 | 61.1580 | 147 | 469 | 144 | 178 | 166 | 93.2584 | |
| ciseli-custom | INDEL | * | segdup | het | 88.2244 | 88.4038 | 88.0457 | 95.3251 | 1296 | 170 | 1311 | 178 | 90 | 50.5618 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 95.3539 | 94.1988 | 96.5376 | 67.5442 | 4709 | 290 | 4963 | 178 | 155 | 87.0787 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 95.3539 | 94.1988 | 96.5376 | 67.5442 | 4709 | 290 | 4963 | 178 | 155 | 87.0787 | |
| bgallagher-sentieon | SNP | tv | map_l125_m1_e0 | het | 98.8364 | 99.4173 | 98.2622 | 74.9493 | 10067 | 59 | 10065 | 178 | 22 | 12.3596 | |
| asubramanian-gatk | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 0.0000 | 0.0000 | 80.1782 | 0 | 0 | 0 | 178 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 0.0000 | 0.0000 | 80.1782 | 0 | 0 | 0 | 178 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.1554 | 98.2906 | 96.0462 | 69.4738 | 4370 | 76 | 4324 | 178 | 168 | 94.3820 | |
| anovak-vg | INDEL | I1_5 | map_l100_m0_e0 | homalt | 67.9183 | 93.2692 | 53.4031 | 79.4954 | 194 | 14 | 204 | 178 | 167 | 93.8202 | |
| dgrover-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.4591 | 99.4895 | 99.4288 | 67.6195 | 30984 | 159 | 30984 | 178 | 19 | 10.6742 | |
| dgrover-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.4591 | 99.4895 | 99.4288 | 67.6195 | 30984 | 159 | 30984 | 178 | 19 | 10.6742 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 82.8480 | 83.5616 | 82.1464 | 73.3422 | 732 | 144 | 819 | 178 | 170 | 95.5056 | |
| jlack-gatk | INDEL | * | HG002complexvar | homalt | 99.5756 | 99.8076 | 99.3448 | 56.8540 | 26975 | 52 | 26988 | 178 | 171 | 96.0674 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 40.0802 | 45.2489 | 35.9712 | 97.0872 | 100 | 121 | 100 | 178 | 16 | 8.9888 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 66.5297 | 57.6700 | 78.6058 | 62.8737 | 1391 | 1021 | 654 | 178 | 164 | 92.1348 | |
| ghariani-varprowl | INDEL | * | map_l150_m1_e0 | * | 90.8174 | 94.2451 | 87.6303 | 95.0045 | 1261 | 77 | 1261 | 178 | 51 | 28.6517 | |