PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
42851-42900 / 86044 show all | |||||||||||||||
| qzeng-custom | SNP | ti | map_l125_m2_e1 | het | 83.2669 | 73.1126 | 96.6968 | 86.6188 | 13955 | 5132 | 13905 | 475 | 387 | 81.4737 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 73.9804 | 73.1132 | 74.8684 | 46.1375 | 2015 | 741 | 2276 | 764 | 413 | 54.0576 | |
| ckim-isaac | INDEL | I1_5 | HG002complexvar | hetalt | 81.8382 | 73.1170 | 92.9216 | 55.9731 | 1262 | 464 | 1339 | 102 | 87 | 85.2941 | |
| gduggal-bwaplat | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 82.8907 | 73.1218 | 95.6723 | 82.2308 | 2258 | 830 | 2277 | 103 | 19 | 18.4466 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 83.6479 | 73.1252 | 97.7082 | 43.0315 | 5246 | 1928 | 5244 | 123 | 121 | 98.3740 | |
| ckim-gatk | SNP | tv | map_l125_m1_e0 | * | 83.4275 | 73.1269 | 97.1059 | 85.2195 | 11712 | 4304 | 11710 | 349 | 14 | 4.0115 | |
| anovak-vg | INDEL | * | map_siren | * | 72.9885 | 73.1309 | 72.8467 | 79.6324 | 5419 | 1991 | 5489 | 2046 | 1378 | 67.3509 | |
| gduggal-snapfb | INDEL | D6_15 | map_l100_m2_e1 | homalt | 81.6667 | 73.1343 | 92.4528 | 88.7712 | 49 | 18 | 49 | 4 | 4 | 100.0000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 84.0574 | 73.1400 | 98.8060 | 22.4537 | 580 | 213 | 331 | 4 | 4 | 100.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 83.5380 | 73.1417 | 97.3796 | 64.9640 | 10814 | 3971 | 10814 | 291 | 228 | 78.3505 | |
| gduggal-bwavard | INDEL | I6_15 | HG002complexvar | homalt | 84.0374 | 73.1466 | 98.7385 | 35.6458 | 888 | 326 | 861 | 11 | 9 | 81.8182 | |
| gduggal-snapplat | INDEL | * | map_l150_m2_e0 | * | 80.2426 | 73.1534 | 88.8532 | 94.8529 | 1030 | 378 | 1108 | 139 | 20 | 14.3885 | |
| qzeng-custom | SNP | tv | map_l125_m2_e0 | homalt | 84.1423 | 73.1594 | 99.0054 | 69.1320 | 4402 | 1615 | 4380 | 44 | 44 | 100.0000 | |
| gduggal-snapplat | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 84.0660 | 73.1690 | 98.7769 | 51.5065 | 2018 | 740 | 2019 | 25 | 12 | 48.0000 | |
| gduggal-snapvard | INDEL | D6_15 | map_l150_m2_e0 | * | 72.9884 | 73.1707 | 72.8070 | 88.6680 | 60 | 22 | 83 | 31 | 20 | 64.5161 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 68.9655 | 73.1707 | 65.2174 | 70.5128 | 30 | 11 | 30 | 16 | 13 | 81.2500 | |
| ltrigg-rtg1 | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 83.5267 | 73.1707 | 97.2973 | 89.3372 | 30 | 11 | 36 | 1 | 1 | 100.0000 | |
| anovak-vg | SNP | * | map_l150_m0_e0 | homalt | 84.1702 | 73.1719 | 99.0595 | 77.5693 | 2992 | 1097 | 2949 | 28 | 25 | 89.2857 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 82.4404 | 73.1758 | 94.3910 | 71.5718 | 1765 | 647 | 1767 | 105 | 26 | 24.7619 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 84.0126 | 73.1844 | 98.6014 | 27.7778 | 131 | 48 | 141 | 2 | 1 | 50.0000 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 78.9525 | 73.1884 | 85.7021 | 53.5402 | 303 | 111 | 1001 | 167 | 136 | 81.4371 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 65.1163 | 73.2026 | 58.6387 | 74.4652 | 112 | 41 | 112 | 79 | 62 | 78.4810 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 84.4037 | 73.2095 | 99.6390 | 55.5377 | 828 | 303 | 828 | 3 | 3 | 100.0000 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 69.8290 | 73.2103 | 66.7462 | 59.7115 | 992 | 363 | 839 | 418 | 413 | 98.8038 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 80.2126 | 73.2143 | 88.6901 | 63.6383 | 1558 | 570 | 1537 | 196 | 162 | 82.6531 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 62.9804 | 73.2283 | 55.2486 | 68.8468 | 93 | 34 | 100 | 81 | 11 | 13.5802 | |
| ckim-vqsr | SNP | tv | map_l100_m1_e0 | het | 84.0404 | 73.2308 | 98.5936 | 85.7766 | 11290 | 4127 | 11287 | 161 | 1 | 0.6211 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 81.2500 | 73.2394 | 91.2281 | 63.4615 | 52 | 19 | 52 | 5 | 5 | 100.0000 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 84.3756 | 73.2446 | 99.4960 | 78.1450 | 991 | 362 | 987 | 5 | 3 | 60.0000 | |
| ckim-isaac | INDEL | D6_15 | HG002complexvar | hetalt | 82.1814 | 73.2478 | 93.5968 | 47.9210 | 742 | 271 | 1184 | 81 | 69 | 85.1852 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 84.2832 | 73.2558 | 99.2188 | 72.2343 | 126 | 46 | 127 | 1 | 1 | 100.0000 | |
| mlin-fermikit | INDEL | I16_PLUS | map_siren | * | 77.8754 | 73.2558 | 83.1169 | 87.6603 | 63 | 23 | 64 | 13 | 9 | 69.2308 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | map_siren | * | 81.8182 | 73.2558 | 92.6471 | 71.7842 | 63 | 23 | 63 | 5 | 3 | 60.0000 | |
| qzeng-custom | SNP | tv | map_l125_m2_e1 | homalt | 84.2063 | 73.2631 | 98.9926 | 69.1889 | 4450 | 1624 | 4422 | 45 | 45 | 100.0000 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 76.4883 | 73.2719 | 80.0000 | 75.0000 | 159 | 58 | 4 | 1 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | D6_15 | map_siren | * | 82.8291 | 73.2809 | 95.2381 | 76.5845 | 373 | 136 | 380 | 19 | 17 | 89.4737 | |
| jmaeng-gatk | SNP | tv | map_l125_m1_e0 | * | 83.4629 | 73.2830 | 96.9274 | 85.3732 | 11737 | 4279 | 11735 | 372 | 13 | 3.4946 | |
| eyeh-varpipe | INDEL | D6_15 | segdup | * | 76.3001 | 73.2984 | 79.5580 | 91.7314 | 140 | 51 | 144 | 37 | 36 | 97.2973 | |
| ciseli-custom | SNP | * | map_l150_m1_e0 | * | 77.9234 | 73.3052 | 83.1626 | 80.2472 | 22438 | 8171 | 22404 | 4536 | 1124 | 24.7795 | |
| cchapple-custom | INDEL | I6_15 | map_l125_m0_e0 | * | 81.4815 | 73.3333 | 91.6667 | 95.4887 | 11 | 4 | 11 | 1 | 0 | 0.0000 | |
| cchapple-custom | INDEL | I6_15 | map_l150_m1_e0 | het | 82.1333 | 73.3333 | 93.3333 | 95.3416 | 11 | 4 | 14 | 1 | 0 | 0.0000 | |
| cchapple-custom | INDEL | I6_15 | map_l150_m2_e0 | het | 82.1333 | 73.3333 | 93.3333 | 95.9350 | 11 | 4 | 14 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | D1_5 | map_l125_m2_e0 | hetalt | 84.6154 | 73.3333 | 100.0000 | 96.8023 | 11 | 4 | 11 | 0 | 0 | ||
| ckim-gatk | INDEL | D1_5 | map_l125_m2_e1 | hetalt | 84.6154 | 73.3333 | 100.0000 | 96.8750 | 11 | 4 | 11 | 0 | 0 | ||
| eyeh-varpipe | INDEL | I6_15 | map_l125_m0_e0 | * | 80.7128 | 73.3333 | 89.7436 | 84.6457 | 11 | 4 | 35 | 4 | 3 | 75.0000 | |
| eyeh-varpipe | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 57.5581 | 73.3333 | 47.3684 | 85.4962 | 11 | 4 | 9 | 10 | 1 | 10.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | map_l150_m1_e0 | * | 81.4815 | 73.3333 | 91.6667 | 92.2581 | 11 | 4 | 11 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | I6_15 | map_l125_m0_e0 | * | 81.4815 | 73.3333 | 91.6667 | 91.5493 | 11 | 4 | 11 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 84.6154 | 73.3333 | 100.0000 | 54.7945 | 33 | 12 | 33 | 0 | 0 | ||
| gduggal-bwaplat | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 81.4815 | 73.3333 | 91.6667 | 96.9773 | 11 | 4 | 11 | 1 | 1 | 100.0000 | |