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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
12651-12700 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 80.4071 | 98.1366 | 68.1034 | 35.1955 | 158 | 3 | 158 | 74 | 67 | 90.5405 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 88.7848 | 98.4043 | 80.8786 | 56.7114 | 185 | 3 | 313 | 74 | 73 | 98.6486 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 35.8169 | 30.4348 | 43.5115 | 29.1892 | 49 | 112 | 57 | 74 | 60 | 81.0811 | |
| anovak-vg | INDEL | D6_15 | map_siren | het | 77.1497 | 77.5000 | 76.8025 | 78.9021 | 217 | 63 | 245 | 74 | 50 | 67.5676 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 96.9633 | 96.8927 | 97.0341 | 36.0748 | 2401 | 77 | 2421 | 74 | 41 | 55.4054 | |
| anovak-vg | SNP | ti | segdup | homalt | 98.8024 | 98.6009 | 99.0047 | 87.1313 | 7400 | 105 | 7361 | 74 | 73 | 98.6486 | |
| astatham-gatk | SNP | * | map_l125_m0_e0 | * | 93.0056 | 87.2530 | 99.5702 | 78.3613 | 16914 | 2471 | 16911 | 73 | 29 | 39.7260 | |
| asubramanian-gatk | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 0.0000 | 0.0000 | 69.3277 | 0 | 0 | 0 | 73 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.5183 | 97.1076 | 97.9326 | 72.3189 | 3458 | 103 | 3458 | 73 | 57 | 78.0822 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 22.4849 | 18.3099 | 29.1262 | 29.9320 | 26 | 116 | 30 | 73 | 61 | 83.5616 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 15.5475 | 9.5361 | 42.0635 | 45.6897 | 37 | 351 | 53 | 73 | 43 | 58.9041 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.2443 | 95.7292 | 98.8082 | 63.2331 | 6052 | 270 | 6052 | 73 | 63 | 86.3014 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.2443 | 95.7292 | 98.8082 | 63.2331 | 6052 | 270 | 6052 | 73 | 63 | 86.3014 | |
| asubramanian-gatk | INDEL | I1_5 | HG002compoundhet | het | 93.5851 | 96.0000 | 91.2888 | 86.8239 | 816 | 34 | 765 | 73 | 70 | 95.8904 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 85.5705 | 97.7901 | 76.0656 | 82.2571 | 354 | 8 | 232 | 73 | 71 | 97.2603 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4066 | 99.4274 | 99.3858 | 50.7439 | 11807 | 68 | 11812 | 73 | 23 | 31.5068 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.8837 | 95.6479 | 98.1519 | 65.9512 | 3890 | 177 | 3877 | 73 | 64 | 87.6712 | |
| hfeng-pmm1 | SNP | ti | map_l125_m2_e0 | het | 99.2396 | 98.8716 | 99.6103 | 71.4782 | 18663 | 213 | 18659 | 73 | 18 | 24.6575 | |
| jli-custom | INDEL | * | HG002complexvar | het | 99.4410 | 99.0457 | 99.8394 | 56.1111 | 45771 | 441 | 45384 | 73 | 32 | 43.8356 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.0944 | 96.6971 | 99.5326 | 66.9886 | 15546 | 531 | 15546 | 73 | 43 | 58.9041 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.0944 | 96.6971 | 99.5326 | 66.9886 | 15546 | 531 | 15546 | 73 | 43 | 58.9041 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.0762 | 99.4760 | 94.7894 | 67.5394 | 1329 | 7 | 1328 | 73 | 4 | 5.4795 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 95.6084 | 99.4152 | 92.0824 | 70.5431 | 850 | 5 | 849 | 73 | 4 | 5.4795 | |
| gduggal-bwafb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 91.7011 | 87.0959 | 96.8206 | 45.2421 | 9672 | 1433 | 2223 | 73 | 72 | 98.6301 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 93.9002 | 90.2088 | 97.9065 | 45.7445 | 3326 | 361 | 3414 | 73 | 65 | 89.0411 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 77.0749 | 65.9030 | 92.8079 | 55.0487 | 489 | 253 | 942 | 73 | 69 | 94.5205 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.4567 | 99.7995 | 97.1496 | 66.8736 | 2489 | 5 | 2488 | 73 | 10 | 13.6986 | |
| gduggal-bwavard | INDEL | I1_5 | map_l100_m1_e0 | het | 94.4243 | 97.9408 | 91.1515 | 88.7786 | 761 | 16 | 752 | 73 | 34 | 46.5753 | |
| gduggal-bwaplat | INDEL | I16_PLUS | HG002compoundhet | * | 76.7851 | 64.4424 | 94.9759 | 53.5783 | 1381 | 762 | 1380 | 73 | 63 | 86.3014 | |
| gduggal-bwaplat | INDEL | I6_15 | HG002compoundhet | het | 65.8766 | 65.8654 | 65.8879 | 86.4385 | 137 | 71 | 141 | 73 | 16 | 21.9178 | |
| gduggal-bwavard | INDEL | C6_15 | HG002complexvar | * | 87.4786 | 100.0000 | 77.7439 | 86.1311 | 4 | 0 | 255 | 73 | 32 | 43.8356 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.4291 | 98.7026 | 98.1570 | 66.1366 | 3880 | 51 | 3888 | 73 | 1 | 1.3699 | |
| jpowers-varprowl | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 96.4576 | 97.6253 | 95.3175 | 78.6292 | 1480 | 36 | 1486 | 73 | 21 | 28.7671 | |
| jpowers-varprowl | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.2548 | 98.6087 | 97.9035 | 45.6956 | 3402 | 48 | 3409 | 73 | 33 | 45.2055 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.6268 | 98.9870 | 98.2693 | 80.7168 | 4104 | 42 | 4145 | 73 | 1 | 1.3699 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.0783 | 98.8658 | 97.3033 | 81.4881 | 2615 | 30 | 2634 | 73 | 1 | 1.3699 | |
| ltrigg-rtg2 | INDEL | * | map_siren | * | 98.2573 | 97.5304 | 98.9952 | 77.5300 | 7227 | 183 | 7192 | 73 | 11 | 15.0685 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.9463 | 95.1598 | 98.8011 | 63.5083 | 6016 | 306 | 6016 | 73 | 59 | 80.8219 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.9463 | 95.1598 | 98.8011 | 63.5083 | 6016 | 306 | 6016 | 73 | 59 | 80.8219 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 22.2306 | 13.2826 | 68.1223 | 82.0392 | 157 | 1025 | 156 | 73 | 59 | 80.8219 | |
| jpowers-varprowl | INDEL | D16_PLUS | * | homalt | 72.0589 | 58.7470 | 93.1712 | 70.1813 | 994 | 698 | 996 | 73 | 69 | 94.5205 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 73.8504 | 59.7109 | 96.7642 | 46.8551 | 2189 | 1477 | 2183 | 73 | 54 | 73.9726 | |
| gduggal-snapplat | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 80.9810 | 69.4783 | 97.0481 | 57.6686 | 2397 | 1053 | 2400 | 73 | 9 | 12.3288 | |
| gduggal-snapplat | INDEL | D1_5 | map_l100_m0_e0 | * | 84.4218 | 78.4473 | 91.3813 | 92.4805 | 677 | 186 | 774 | 73 | 17 | 23.2877 | |
| gduggal-snapplat | INDEL | D1_5 | map_l150_m2_e0 | het | 83.8926 | 81.3230 | 86.6300 | 94.6747 | 418 | 96 | 473 | 73 | 17 | 23.2877 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 40.1458 | 27.7350 | 72.6592 | 88.8238 | 180 | 469 | 194 | 73 | 28 | 38.3562 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 28.2151 | 17.9394 | 66.0465 | 75.3157 | 148 | 677 | 142 | 73 | 45 | 61.6438 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 28.2151 | 17.9394 | 66.0465 | 75.3157 | 148 | 677 | 142 | 73 | 45 | 61.6438 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 91.1970 | 96.8085 | 86.2004 | 69.9943 | 455 | 15 | 456 | 73 | 58 | 79.4521 | |
| rpoplin-dv42 | INDEL | * | map_siren | het | 98.2013 | 98.0257 | 98.3774 | 81.3714 | 4419 | 89 | 4426 | 73 | 37 | 50.6849 | |