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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
20801-20850 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.4179 | 97.9487 | 96.8928 | 71.1401 | 30130 | 631 | 30123 | 966 | 497 | 51.4493 | |
| ltrigg-rtg2 | INDEL | D6_15 | HG002complexvar | het | 98.5457 | 97.9487 | 99.1499 | 50.4465 | 3056 | 64 | 2916 | 25 | 8 | 32.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.7294 | 97.9480 | 99.5234 | 39.3399 | 5012 | 105 | 5012 | 24 | 23 | 95.8333 | |
| cchapple-custom | INDEL | I1_5 | map_l125_m2_e0 | homalt | 98.6662 | 97.9472 | 99.3958 | 83.2320 | 334 | 7 | 329 | 2 | 1 | 50.0000 | |
| hfeng-pmm3 | INDEL | * | map_l150_m0_e0 | het | 97.3854 | 97.9472 | 96.8300 | 91.4173 | 334 | 7 | 336 | 11 | 1 | 9.0909 | |
| hfeng-pmm2 | INDEL | * | map_l150_m0_e0 | het | 96.5459 | 97.9472 | 95.1841 | 92.9709 | 334 | 7 | 336 | 17 | 1 | 5.8824 | |
| jlack-gatk | SNP | ti | map_l250_m1_e0 | * | 94.0942 | 97.9472 | 90.5329 | 92.4177 | 4485 | 94 | 4485 | 469 | 43 | 9.1684 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.9528 | 97.9466 | 99.9799 | 52.0162 | 9969 | 209 | 9970 | 2 | 1 | 50.0000 | |
| ghariani-varprowl | SNP | tv | map_l100_m0_e0 | homalt | 98.6901 | 97.9459 | 99.4456 | 67.1380 | 3767 | 79 | 3767 | 21 | 11 | 52.3810 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.6497 | 97.9456 | 99.3640 | 46.2896 | 1621 | 34 | 2812 | 18 | 16 | 88.8889 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5699 | 97.9439 | 99.2039 | 75.0813 | 6288 | 132 | 6231 | 50 | 21 | 42.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5699 | 97.9439 | 99.2039 | 75.0813 | 6288 | 132 | 6231 | 50 | 21 | 42.0000 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.9613 | 97.9439 | 100.0000 | 73.6658 | 524 | 11 | 528 | 0 | 0 | ||
| ckim-dragen | INDEL | D1_5 | map_l100_m1_e0 | * | 97.5455 | 97.9437 | 97.1505 | 85.1212 | 1810 | 38 | 1807 | 53 | 6 | 11.3208 | |
| dgrover-gatk | INDEL | * | map_l150_m2_e1 | het | 97.7901 | 97.9437 | 97.6369 | 91.8626 | 905 | 19 | 909 | 22 | 3 | 13.6364 | |
| egarrison-hhga | INDEL | D1_5 | map_l100_m1_e0 | * | 98.0764 | 97.9437 | 98.2094 | 82.9273 | 1810 | 38 | 1810 | 33 | 12 | 36.3636 | |
| jli-custom | INDEL | * | map_l150_m2_e1 | het | 98.1579 | 97.9437 | 98.3731 | 89.4713 | 905 | 19 | 907 | 15 | 4 | 26.6667 | |
| eyeh-varpipe | INDEL | D1_5 | map_l150_m2_e1 | * | 97.7557 | 97.9434 | 97.5687 | 88.8732 | 762 | 16 | 923 | 23 | 13 | 56.5217 | |
| dgrover-gatk | INDEL | I1_5 | map_l125_m1_e0 | het | 98.3497 | 97.9424 | 98.7603 | 87.9181 | 476 | 10 | 478 | 6 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | I1_5 | map_l125_m1_e0 | het | 96.6592 | 97.9424 | 95.4092 | 91.8124 | 476 | 10 | 478 | 23 | 1 | 4.3478 | |
| jlack-gatk | INDEL | I1_5 | map_l125_m1_e0 | het | 94.8373 | 97.9424 | 91.9231 | 91.0821 | 476 | 10 | 478 | 42 | 2 | 4.7619 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l125_m1_e0 | het | 98.4509 | 97.9424 | 98.9648 | 85.0418 | 476 | 10 | 478 | 5 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l125_m1_e0 | het | 98.4488 | 97.9424 | 98.9605 | 85.8903 | 476 | 10 | 476 | 5 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l125_m1_e0 | het | 98.1477 | 97.9424 | 98.3539 | 86.9705 | 476 | 10 | 478 | 8 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.4981 | 97.9421 | 99.0604 | 41.3577 | 24035 | 505 | 24037 | 228 | 220 | 96.4912 | |
| egarrison-hhga | INDEL | * | map_l100_m1_e0 | het | 97.5114 | 97.9418 | 97.0848 | 83.6025 | 2189 | 46 | 2198 | 66 | 29 | 43.9394 | |
| 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 | |
| ndellapenna-hhga | INDEL | I1_5 | map_l100_m1_e0 | het | 98.5107 | 97.9408 | 99.0874 | 83.2679 | 761 | 16 | 760 | 7 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 81.6794 | 97.9405 | 70.0491 | 45.2509 | 428 | 9 | 428 | 183 | 183 | 100.0000 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 97.9824 | 97.9405 | 98.0243 | 36.9430 | 1284 | 27 | 1290 | 26 | 13 | 50.0000 | |
| jmaeng-gatk | INDEL | * | map_l150_m2_e0 | * | 95.8724 | 97.9403 | 93.8900 | 93.2577 | 1379 | 29 | 1383 | 90 | 9 | 10.0000 | |
| ghariani-varprowl | INDEL | * | map_l125_m2_e1 | het | 91.2339 | 97.9403 | 85.3870 | 92.0826 | 1379 | 29 | 1379 | 236 | 77 | 32.6271 | |
| hfeng-pmm1 | INDEL | I16_PLUS | * | het | 98.4241 | 97.9397 | 98.9135 | 73.5192 | 2662 | 56 | 2640 | 29 | 4 | 13.7931 | |
| ndellapenna-hhga | SNP | ti | map_l125_m0_e0 | * | 98.8454 | 97.9392 | 99.7685 | 71.9216 | 12499 | 263 | 12499 | 29 | 16 | 55.1724 | |
| hfeng-pmm1 | INDEL | D1_5 | HG002complexvar | het | 98.9178 | 97.9388 | 99.9165 | 54.1519 | 20337 | 428 | 20340 | 17 | 9 | 52.9412 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.1375 | 97.9385 | 98.3373 | 54.7451 | 2898 | 61 | 2898 | 49 | 23 | 46.9388 | |
| jmaeng-gatk | SNP | ti | * | hetalt | 98.5307 | 97.9381 | 99.1304 | 54.1467 | 570 | 12 | 570 | 5 | 5 | 100.0000 | |
| hfeng-pmm1 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.3182 | 97.9381 | 98.7013 | 74.2475 | 380 | 8 | 380 | 5 | 1 | 20.0000 | |
| hfeng-pmm1 | INDEL | * | HG002complexvar | het | 98.8731 | 97.9378 | 99.8265 | 56.4583 | 45259 | 953 | 44888 | 78 | 43 | 55.1282 | |
| ckim-gatk | INDEL | I16_PLUS | HG002complexvar | * | 98.6154 | 97.9374 | 99.3029 | 66.7953 | 1282 | 27 | 1282 | 9 | 9 | 100.0000 | |
| ckim-dragen | INDEL | I16_PLUS | HG002complexvar | * | 98.6149 | 97.9374 | 99.3018 | 67.0164 | 1282 | 27 | 1280 | 9 | 8 | 88.8889 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 92.6051 | 97.9373 | 87.8236 | 56.1886 | 11063 | 233 | 11468 | 1590 | 1468 | 92.3270 | |
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 97.8252 | 97.9371 | 97.7135 | 64.8985 | 3798 | 80 | 3718 | 87 | 10 | 11.4943 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.5348 | 97.9369 | 99.1400 | 71.5584 | 807 | 17 | 807 | 7 | 3 | 42.8571 | |
| ckim-vqsr | INDEL | D16_PLUS | * | * | 97.9266 | 97.9363 | 97.9170 | 71.5505 | 6644 | 140 | 6628 | 141 | 105 | 74.4681 | |
| dgrover-gatk | SNP | ti | map_l250_m0_e0 | homalt | 98.7283 | 97.9358 | 99.5338 | 91.1982 | 427 | 9 | 427 | 2 | 1 | 50.0000 | |
| gduggal-bwafb | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.0382 | 97.9352 | 92.3077 | 77.3745 | 3083 | 65 | 3096 | 258 | 64 | 24.8062 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.9478 | 97.9351 | 97.9605 | 73.1911 | 5976 | 126 | 5956 | 124 | 48 | 38.7097 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 90.7947 | 97.9343 | 84.6254 | 85.1417 | 14270 | 301 | 14322 | 2602 | 202 | 7.7633 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 90.7947 | 97.9343 | 84.6254 | 85.1417 | 14270 | 301 | 14322 | 2602 | 202 | 7.7633 | |