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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
79801-79850 / 86044 show all | |||||||||||||||
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.6406 | 96.4859 | 98.8233 | 61.6023 | 12081 | 440 | 11926 | 142 | 130 | 91.5493 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 85.4414 | 79.6287 | 92.1694 | 54.6077 | 1673 | 428 | 1589 | 135 | 130 | 96.2963 | |
| hfeng-pmm2 | INDEL | I1_5 | * | het | 99.6023 | 99.4952 | 99.7096 | 59.9116 | 78642 | 399 | 78624 | 229 | 130 | 56.7686 | |
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 97.5583 | 98.0061 | 97.1145 | 57.2508 | 10863 | 221 | 11039 | 328 | 130 | 39.6341 | |
| anovak-vg | SNP | * | map_l100_m1_e0 | homalt | 91.6965 | 85.1461 | 99.3387 | 58.6113 | 22992 | 4011 | 22684 | 151 | 130 | 86.0927 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 94.0474 | 96.9194 | 91.3406 | 62.4853 | 1636 | 52 | 1751 | 166 | 130 | 78.3133 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 97.6411 | 98.1762 | 97.1119 | 60.4037 | 10712 | 199 | 11029 | 328 | 130 | 39.6341 | |
| asubramanian-gatk | INDEL | D16_PLUS | * | * | 96.9778 | 96.5949 | 97.3637 | 71.3383 | 6553 | 231 | 6537 | 177 | 130 | 73.4463 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.1487 | 95.7792 | 96.5210 | 75.6177 | 4788 | 211 | 4772 | 172 | 130 | 75.5814 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.1487 | 95.7792 | 96.5210 | 75.6177 | 4788 | 211 | 4772 | 172 | 130 | 75.5814 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.4729 | 99.6276 | 91.6509 | 80.5506 | 2408 | 9 | 2415 | 220 | 130 | 59.0909 | |
| ghariani-varprowl | SNP | ti | map_l100_m0_e0 | het | 97.4217 | 98.6269 | 96.2456 | 76.6277 | 13791 | 192 | 13792 | 538 | 130 | 24.1636 | |
| gduggal-snapfb | SNP | ti | map_l250_m2_e1 | * | 94.5649 | 94.0898 | 95.0448 | 89.7593 | 4776 | 300 | 4776 | 249 | 130 | 52.2088 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 86.2598 | 90.9752 | 82.0090 | 83.7372 | 13256 | 1315 | 13087 | 2871 | 130 | 4.5280 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 86.2598 | 90.9752 | 82.0090 | 83.7372 | 13256 | 1315 | 13087 | 2871 | 130 | 4.5280 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 95.0193 | 92.3530 | 97.8441 | 60.3645 | 12705 | 1052 | 12662 | 279 | 130 | 46.5950 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 95.0193 | 92.3530 | 97.8441 | 60.3645 | 12705 | 1052 | 12662 | 279 | 130 | 46.5950 | |
| gduggal-bwafb | SNP | * | HG002compoundhet | het | 96.7961 | 98.6458 | 95.0145 | 51.0584 | 13986 | 192 | 14103 | 740 | 130 | 17.5676 | |
| jpowers-varprowl | SNP | ti | map_l150_m1_e0 | het | 96.3303 | 95.7074 | 96.9615 | 80.9022 | 11839 | 531 | 11839 | 371 | 130 | 35.0404 | |
| jpowers-varprowl | SNP | ti | map_l150_m2_e0 | het | 96.4300 | 95.8311 | 97.0364 | 82.0218 | 12344 | 537 | 12344 | 377 | 130 | 34.4828 | |
| jli-custom | SNP | ti | * | * | 99.9536 | 99.9637 | 99.9435 | 16.8976 | 2084755 | 756 | 2084716 | 1179 | 130 | 11.0263 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 78.0811 | 92.6531 | 67.4699 | 80.7692 | 454 | 36 | 280 | 135 | 130 | 96.2963 | |
| dgrover-gatk | INDEL | D6_15 | HG002compoundhet | homalt | 26.9663 | 100.0000 | 15.5844 | 70.3846 | 24 | 0 | 24 | 130 | 130 | 100.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 90.7286 | 91.6605 | 89.8154 | 74.1565 | 1242 | 113 | 1314 | 149 | 130 | 87.2483 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 81.0289 | 75.8175 | 87.0096 | 52.5248 | 997 | 318 | 998 | 149 | 131 | 87.9195 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 77.6152 | 64.0108 | 98.5632 | 45.9265 | 10693 | 6012 | 10153 | 148 | 131 | 88.5135 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 77.6152 | 64.0108 | 98.5632 | 45.9265 | 10693 | 6012 | 10153 | 148 | 131 | 88.5135 | |
| ckim-vqsr | INDEL | D6_15 | * | homalt | 98.8887 | 99.8735 | 97.9231 | 55.6564 | 6318 | 8 | 6318 | 134 | 131 | 97.7612 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.1989 | 99.8938 | 96.5606 | 60.0492 | 3762 | 4 | 3762 | 134 | 131 | 97.7612 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.1989 | 99.8938 | 96.5606 | 60.0492 | 3762 | 4 | 3762 | 134 | 131 | 97.7612 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.2419 | 94.8438 | 97.6819 | 61.2333 | 5040 | 274 | 6110 | 145 | 131 | 90.3448 | |
| anovak-vg | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.3819 | 93.7500 | 91.0531 | 69.7462 | 3045 | 203 | 3104 | 305 | 131 | 42.9508 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 26.7404 | 22.0721 | 33.9130 | 42.0655 | 49 | 173 | 78 | 152 | 131 | 86.1842 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 77.8473 | 92.4490 | 67.2289 | 80.6707 | 453 | 37 | 279 | 136 | 131 | 96.3235 | |
| ciseli-custom | INDEL | * | map_l100_m0_e0 | het | 69.9621 | 66.1117 | 74.2888 | 90.7085 | 675 | 346 | 679 | 235 | 131 | 55.7447 | |
| qzeng-custom | SNP | * | map_l250_m0_e0 | * | 69.9445 | 58.1265 | 87.7944 | 98.0283 | 1241 | 894 | 1230 | 171 | 131 | 76.6082 | |
| mlin-fermikit | SNP | * | map_l250_m0_e0 | homalt | 49.5108 | 40.2226 | 64.3766 | 80.0000 | 253 | 376 | 253 | 140 | 131 | 93.5714 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 90.8852 | 91.7343 | 90.0517 | 74.0181 | 1243 | 112 | 1394 | 154 | 131 | 85.0649 | |
| ndellapenna-hhga | SNP | tv | HG002complexvar | * | 99.7569 | 99.5881 | 99.9262 | 21.8704 | 245138 | 1014 | 245164 | 181 | 131 | 72.3757 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 87.0552 | 97.3435 | 78.7338 | 77.6244 | 513 | 14 | 485 | 131 | 131 | 100.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.5933 | 99.7860 | 95.4949 | 53.0674 | 2798 | 6 | 2798 | 132 | 131 | 99.2424 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.8473 | 99.8104 | 95.9599 | 54.4297 | 3159 | 6 | 3159 | 133 | 131 | 98.4962 | |
| jpowers-varprowl | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.3156 | 99.8517 | 96.8261 | 47.4887 | 6735 | 10 | 6742 | 221 | 131 | 59.2760 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.4831 | 99.6276 | 89.8438 | 81.7577 | 2408 | 9 | 2415 | 273 | 131 | 47.9853 | |
| jpowers-varprowl | SNP | ti | map_l150_m2_e1 | het | 96.4360 | 95.8433 | 97.0362 | 82.0973 | 12474 | 541 | 12474 | 381 | 131 | 34.3832 | |
| gduggal-snapvard | SNP | * | map_l150_m0_e0 | het | 85.0213 | 95.7305 | 76.4670 | 87.2666 | 7601 | 339 | 7519 | 2314 | 131 | 5.6612 | |
| ghariani-varprowl | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.4008 | 99.8073 | 97.0334 | 44.7618 | 6732 | 13 | 6738 | 206 | 131 | 63.5922 | |
| ghariani-varprowl | SNP | * | map_l150_m0_e0 | het | 95.5372 | 98.2746 | 92.9482 | 86.2530 | 7803 | 137 | 7803 | 592 | 131 | 22.1284 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 28.6628 | 18.2874 | 66.2500 | 62.2444 | 504 | 2252 | 477 | 243 | 131 | 53.9095 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 65.7127 | 54.1731 | 83.4992 | 45.7734 | 1058 | 895 | 1007 | 199 | 131 | 65.8291 | |