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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
20101-20150 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 87.6722 | 83.5938 | 92.1690 | 57.0360 | 1498 | 294 | 1483 | 126 | 81 | 64.2857 | |
| egarrison-hhga | INDEL | D6_15 | map_l100_m1_e0 | het | 94.2063 | 98.4127 | 90.3448 | 86.6236 | 124 | 2 | 131 | 14 | 9 | 64.2857 | |
| egarrison-hhga | INDEL | D6_15 | map_l100_m2_e0 | het | 94.4089 | 98.4733 | 90.6667 | 87.1023 | 129 | 2 | 136 | 14 | 9 | 64.2857 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.2037 | 89.1403 | 93.3649 | 89.3380 | 197 | 24 | 197 | 14 | 9 | 64.2857 | |
| eyeh-varpipe | INDEL | C6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 0.0000 | 0.0000 | 12.5000 | 91.6230 | 0 | 0 | 2 | 14 | 9 | 64.2857 | |
| ckim-isaac | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 92.3491 | 87.7265 | 97.4860 | 57.2867 | 4260 | 596 | 4343 | 112 | 72 | 64.2857 | |
| gduggal-snapfb | INDEL | * | map_l125_m1_e0 | homalt | 96.9613 | 95.9016 | 98.0447 | 89.0553 | 702 | 30 | 702 | 14 | 9 | 64.2857 | |
| gduggal-snapfb | INDEL | * | map_l125_m2_e0 | homalt | 97.0861 | 96.0682 | 98.1258 | 89.6192 | 733 | 30 | 733 | 14 | 9 | 64.2857 | |
| gduggal-snapfb | INDEL | * | map_l125_m2_e1 | homalt | 97.1279 | 96.1240 | 98.1530 | 89.6772 | 744 | 30 | 744 | 14 | 9 | 64.2857 | |
| anovak-vg | INDEL | D6_15 | map_l150_m2_e0 | * | 79.8890 | 78.0488 | 81.8182 | 91.2201 | 64 | 18 | 63 | 14 | 9 | 64.2857 | |
| anovak-vg | INDEL | D6_15 | map_l150_m2_e1 | * | 79.8957 | 77.6471 | 82.2785 | 91.1236 | 66 | 19 | 65 | 14 | 9 | 64.2857 | |
| bgallagher-sentieon | INDEL | * | HG002complexvar | het | 99.6698 | 99.5477 | 99.7922 | 57.6447 | 46003 | 209 | 45633 | 95 | 61 | 64.2105 | |
| jpowers-varprowl | INDEL | * | map_l150_m2_e0 | * | 92.6847 | 91.3352 | 94.0746 | 90.7989 | 1286 | 122 | 1286 | 81 | 52 | 64.1975 | |
| qzeng-custom | INDEL | D1_5 | map_siren | * | 93.2868 | 89.0337 | 97.9666 | 83.5685 | 3142 | 387 | 3228 | 67 | 43 | 64.1791 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 45.4191 | 32.4145 | 75.8496 | 67.6203 | 1858 | 3874 | 1674 | 533 | 342 | 64.1651 | |
| anovak-vg | INDEL | D1_5 | segdup | het | 93.3306 | 94.0751 | 92.5978 | 95.1126 | 651 | 41 | 663 | 53 | 34 | 64.1509 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 94.1056 | 96.6465 | 91.6950 | 53.7560 | 3516 | 122 | 3511 | 318 | 204 | 64.1509 | |
| rpoplin-dv42 | SNP | * | map_l125_m2_e0 | * | 99.2517 | 99.0733 | 99.4307 | 70.7955 | 46290 | 433 | 46284 | 265 | 170 | 64.1509 | |
| rpoplin-dv42 | SNP | * | map_l125_m2_e1 | * | 99.2571 | 99.0784 | 99.4365 | 70.8435 | 46767 | 435 | 46761 | 265 | 170 | 64.1509 | |
| gduggal-bwaplat | INDEL | D1_5 | HG002compoundhet | * | 81.6558 | 71.3118 | 95.5098 | 73.5540 | 8725 | 3510 | 8721 | 410 | 263 | 64.1463 | |
| ghariani-varprowl | INDEL | D1_5 | HG002complexvar | homalt | 95.9196 | 95.4992 | 96.3438 | 51.1776 | 10121 | 477 | 10066 | 382 | 245 | 64.1361 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.3588 | 95.3386 | 99.4664 | 56.7621 | 41315 | 2020 | 41569 | 223 | 143 | 64.1256 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.3151 | 97.0053 | 97.6268 | 51.2109 | 1652 | 51 | 5389 | 131 | 84 | 64.1221 | |
| qzeng-custom | INDEL | I1_5 | * | het | 98.4046 | 98.3920 | 98.4173 | 59.0408 | 77770 | 1271 | 82639 | 1329 | 852 | 64.1084 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.1875 | 95.5720 | 96.8111 | 79.9607 | 1295 | 60 | 1184 | 39 | 25 | 64.1026 | |
| gduggal-snapplat | INDEL | D6_15 | HG002complexvar | homalt | 52.8983 | 39.9487 | 78.2700 | 68.0162 | 467 | 702 | 371 | 103 | 66 | 64.0777 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 86.4894 | 84.3750 | 88.7125 | 60.9235 | 486 | 90 | 503 | 64 | 41 | 64.0625 | |
| 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 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 62.5431 | 70.2703 | 56.3470 | 39.8682 | 104 | 44 | 617 | 478 | 306 | 64.0167 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 95.2177 | 93.7500 | 96.7320 | 83.6118 | 2220 | 148 | 2220 | 75 | 48 | 64.0000 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.9487 | 98.5441 | 99.3567 | 82.1497 | 3858 | 57 | 3861 | 25 | 16 | 64.0000 | |
| ciseli-custom | INDEL | D6_15 | segdup | * | 68.3802 | 65.4450 | 71.5909 | 94.3207 | 125 | 66 | 126 | 50 | 32 | 64.0000 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 88.7453 | 86.9963 | 90.5660 | 76.6520 | 475 | 71 | 480 | 50 | 32 | 64.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.8308 | 98.2456 | 99.4230 | 59.7380 | 4368 | 78 | 4308 | 25 | 16 | 64.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 75.9096 | 68.0162 | 85.8757 | 72.5581 | 168 | 79 | 152 | 25 | 16 | 64.0000 | |
| qzeng-custom | INDEL | I16_PLUS | HG002compoundhet | het | 64.8870 | 57.4468 | 74.5413 | 60.7207 | 27 | 20 | 325 | 111 | 71 | 63.9640 | |
| jpowers-varprowl | INDEL | * | map_l150_m2_e1 | * | 92.4162 | 91.0354 | 93.8395 | 90.8085 | 1310 | 129 | 1310 | 86 | 55 | 63.9535 | |
| anovak-vg | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 46.1295 | 40.0000 | 54.4776 | 81.4147 | 62 | 93 | 73 | 61 | 39 | 63.9344 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.6677 | 96.0493 | 95.2892 | 79.6573 | 6394 | 263 | 6392 | 316 | 202 | 63.9241 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 93.7394 | 94.9841 | 92.5270 | 73.6767 | 1193 | 63 | 1201 | 97 | 62 | 63.9175 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 97.3013 | 96.9520 | 97.6532 | 73.8359 | 1495 | 47 | 1498 | 36 | 23 | 63.8889 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.6230 | 96.5771 | 98.6919 | 84.5324 | 2624 | 93 | 2716 | 36 | 23 | 63.8889 | |
| gduggal-bwaplat | INDEL | D16_PLUS | HG002complexvar | * | 76.5914 | 63.4206 | 96.6667 | 72.4490 | 1042 | 601 | 1044 | 36 | 23 | 63.8889 | |
| jmaeng-gatk | SNP | tv | * | homalt | 99.5328 | 99.0793 | 99.9904 | 20.3157 | 373651 | 3472 | 373637 | 36 | 23 | 63.8889 | |
| rpoplin-dv42 | SNP | * | map_l125_m1_e0 | * | 99.2363 | 99.0558 | 99.4176 | 68.8661 | 44899 | 428 | 44893 | 263 | 168 | 63.8783 | |
| ltrigg-rtg1 | INDEL | D6_15 | * | * | 98.2810 | 97.0642 | 99.5288 | 47.5098 | 25326 | 766 | 25133 | 119 | 76 | 63.8655 | |
| ckim-gatk | INDEL | D16_PLUS | * | * | 97.7762 | 97.9953 | 97.5581 | 71.4634 | 6648 | 136 | 6632 | 166 | 106 | 63.8554 | |
| asubramanian-gatk | INDEL | I6_15 | * | het | 98.1049 | 97.0796 | 99.1521 | 59.9730 | 9740 | 293 | 9706 | 83 | 53 | 63.8554 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 82.5563 | 97.7477 | 71.4516 | 75.1004 | 434 | 10 | 443 | 177 | 113 | 63.8418 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 80.7760 | 79.8611 | 81.7121 | 72.0348 | 230 | 58 | 210 | 47 | 30 | 63.8298 | |