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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
68301-68350 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | * | map_l150_m2_e1 | * | 97.9875 | 97.9847 | 97.9903 | 91.3313 | 1410 | 29 | 1414 | 29 | 7 | 24.1379 | |
| gduggal-snapvard | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 81.8084 | 94.5910 | 72.0693 | 83.9601 | 1434 | 82 | 1414 | 548 | 14 | 2.5547 | |
| anovak-vg | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 91.3470 | 92.5462 | 90.1786 | 71.2135 | 1403 | 113 | 1414 | 154 | 61 | 39.6104 | |
| egarrison-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 95.2221 | 93.4610 | 97.0508 | 84.9985 | 1415 | 99 | 1415 | 43 | 17 | 39.5349 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 97.6881 | 99.6496 | 95.8023 | 36.3088 | 1422 | 5 | 1415 | 62 | 31 | 50.0000 | |
| cchapple-custom | SNP | * | map_l250_m0_e0 | het | 94.5598 | 94.1567 | 94.9664 | 94.4554 | 1418 | 88 | 1415 | 75 | 20 | 26.6667 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 54.6930 | 58.1267 | 51.6423 | 65.7757 | 1266 | 912 | 1415 | 1325 | 736 | 55.5472 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.1580 | 99.2264 | 99.0896 | 88.0562 | 1411 | 11 | 1415 | 13 | 6 | 46.1538 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.3322 | 95.2381 | 97.4518 | 62.1184 | 580 | 29 | 1415 | 37 | 32 | 86.4865 | |
| jlack-gatk | INDEL | * | map_l150_m2_e1 | * | 93.6441 | 98.0542 | 89.6137 | 92.6184 | 1411 | 28 | 1415 | 164 | 11 | 6.7073 | |
| eyeh-varpipe | INDEL | D1_5 | map_l100_m1_e0 | het | 98.2562 | 98.1803 | 98.3322 | 81.6008 | 1187 | 22 | 1415 | 24 | 8 | 33.3333 | |
| cchapple-custom | INDEL | * | map_l125_m2_e0 | het | 94.6558 | 96.3336 | 93.0355 | 88.2941 | 1340 | 51 | 1416 | 106 | 19 | 17.9245 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.1612 | 99.7917 | 98.5386 | 73.9012 | 1437 | 3 | 1416 | 21 | 0 | 0.0000 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.5178 | 99.1870 | 97.8576 | 69.7090 | 1342 | 11 | 1416 | 31 | 10 | 32.2581 | |
| qzeng-custom | INDEL | I16_PLUS | HG002compoundhet | * | 72.9335 | 66.6356 | 80.5461 | 47.8493 | 1428 | 715 | 1416 | 342 | 260 | 76.0234 | |
| hfeng-pmm3 | INDEL | * | map_l150_m2_e1 | * | 98.1943 | 98.1237 | 98.2651 | 88.7746 | 1412 | 27 | 1416 | 25 | 6 | 24.0000 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 88.3579 | 90.8190 | 86.0267 | 90.7720 | 1375 | 139 | 1416 | 230 | 12 | 5.2174 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 63.4050 | 90.1585 | 48.8958 | 86.0954 | 1365 | 149 | 1417 | 1481 | 7 | 0.4727 | |
| gduggal-snapplat | SNP | ti | map_l250_m2_e1 | homalt | 88.8192 | 80.0226 | 99.7887 | 88.9408 | 1418 | 354 | 1417 | 3 | 3 | 100.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | * | homalt | 85.6946 | 83.9835 | 87.4769 | 60.7791 | 1421 | 271 | 1418 | 203 | 203 | 100.0000 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 68.0749 | 52.0749 | 98.2675 | 53.6013 | 1418 | 1305 | 1418 | 25 | 24 | 96.0000 | |
| ltrigg-rtg1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.3663 | 99.7116 | 97.0568 | 64.7187 | 1383 | 4 | 1418 | 43 | 1 | 2.3256 | |
| ltrigg-rtg1 | INDEL | * | segdup | het | 98.2095 | 97.4761 | 98.9540 | 92.5626 | 1429 | 37 | 1419 | 15 | 2 | 13.3333 | |
| ckim-gatk | INDEL | * | map_l150_m2_e1 | * | 95.7468 | 98.3322 | 93.2939 | 93.1304 | 1415 | 24 | 1419 | 102 | 10 | 9.8039 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | * | homalt | 94.2470 | 92.2486 | 96.3340 | 45.0988 | 1440 | 121 | 1419 | 54 | 53 | 98.1481 | |
| jli-custom | SNP | * | map_l250_m0_e0 | het | 96.5658 | 94.2895 | 98.9547 | 90.3152 | 1420 | 86 | 1420 | 15 | 7 | 46.6667 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 79.5694 | 95.6738 | 68.1055 | 61.1370 | 1349 | 61 | 1420 | 665 | 621 | 93.3835 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | * | homalt | 94.3162 | 92.3767 | 96.3390 | 45.5318 | 1442 | 119 | 1421 | 54 | 53 | 98.1481 | |
| gduggal-snapvard | INDEL | * | map_l100_m1_e0 | homalt | 91.2452 | 85.0041 | 98.4754 | 75.7601 | 1043 | 184 | 1421 | 22 | 18 | 81.8182 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.4594 | 98.2392 | 98.6806 | 75.0087 | 1339 | 24 | 1421 | 19 | 5 | 26.3158 | |
| gduggal-bwafb | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.6843 | 99.5795 | 99.7893 | 29.7830 | 1421 | 6 | 1421 | 3 | 1 | 33.3333 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 37.9488 | 23.6006 | 96.7984 | 42.1136 | 624 | 2020 | 1421 | 47 | 47 | 100.0000 | |
| hfeng-pmm2 | INDEL | * | map_l150_m2_e1 | * | 97.8966 | 98.4712 | 97.3288 | 90.4206 | 1417 | 22 | 1421 | 39 | 7 | 17.9487 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 74.4984 | 65.6955 | 86.0254 | 69.2922 | 1398 | 730 | 1422 | 231 | 214 | 92.6407 | |
| bgallagher-sentieon | INDEL | * | map_l150_m2_e1 | * | 97.9994 | 98.5407 | 97.4640 | 90.7582 | 1418 | 21 | 1422 | 37 | 8 | 21.6216 | |
| ckim-gatk | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7545 | 99.6496 | 99.8596 | 26.6735 | 1422 | 5 | 1422 | 2 | 2 | 100.0000 | |
| cchapple-custom | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.8596 | 99.7197 | 100.0000 | 23.7942 | 1423 | 4 | 1422 | 0 | 0 | ||
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.0251 | 98.7500 | 99.3017 | 67.9499 | 1422 | 18 | 1422 | 10 | 10 | 100.0000 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 34.5930 | 24.0897 | 61.3362 | 63.5277 | 1429 | 4503 | 1423 | 897 | 832 | 92.7536 | |
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7896 | 99.7197 | 99.8596 | 27.8116 | 1423 | 4 | 1423 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | INDEL | * | map_l100_m0_e0 | * | 92.1981 | 91.1068 | 93.3159 | 87.0820 | 1424 | 139 | 1424 | 102 | 64 | 62.7451 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 66.8635 | 56.6333 | 81.6046 | 52.1656 | 2207 | 1690 | 1424 | 321 | 304 | 94.7040 | |
| ciseli-custom | SNP | ti | map_l250_m2_e1 | homalt | 82.2049 | 80.4740 | 84.0118 | 87.5404 | 1426 | 346 | 1424 | 271 | 196 | 72.3247 | |
| cchapple-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.3038 | 99.8611 | 98.7526 | 69.4861 | 1438 | 2 | 1425 | 18 | 1 | 5.5556 | |
| cchapple-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.9319 | 97.2574 | 98.6159 | 84.9620 | 1383 | 39 | 1425 | 20 | 10 | 50.0000 | |
| ckim-dragen | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.8598 | 99.7898 | 99.9299 | 26.0373 | 1424 | 3 | 1425 | 1 | 1 | 100.0000 | |
| egarrison-hhga | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.8598 | 99.7898 | 99.9299 | 28.4855 | 1424 | 3 | 1425 | 1 | 0 | 0.0000 | |
| mlin-fermikit | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.3774 | 99.7197 | 97.0708 | 30.6893 | 1423 | 4 | 1425 | 43 | 41 | 95.3488 | |
| qzeng-custom | SNP | * | map_l250_m1_e0 | homalt | 73.6061 | 58.5465 | 99.0960 | 88.7560 | 1442 | 1021 | 1425 | 13 | 13 | 100.0000 | |
| ndellapenna-hhga | SNP | * | map_l250_m0_e0 | het | 96.7742 | 94.6215 | 99.0271 | 92.2359 | 1425 | 81 | 1425 | 14 | 5 | 35.7143 | |