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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
19451-19500 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | D1_5 | map_l125_m2_e0 | * | 98.1873 | 97.1129 | 99.2857 | 84.4854 | 1110 | 33 | 1112 | 8 | 1 | 12.5000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 99.0629 | 98.1432 | 100.0000 | 42.5707 | 1110 | 21 | 1117 | 0 | 0 | ||
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 80.9684 | 93.9086 | 71.1625 | 61.2108 | 1110 | 72 | 1108 | 449 | 440 | 97.9955 | |
| gduggal-bwafb | INDEL | I6_15 | HG002complexvar | homalt | 92.1427 | 91.4333 | 92.8631 | 43.3935 | 1110 | 104 | 1106 | 85 | 84 | 98.8235 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 87.7124 | 80.0288 | 97.0280 | 79.4096 | 1110 | 277 | 1110 | 34 | 4 | 11.7647 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 95.9073 | 92.8033 | 99.2261 | 33.2760 | 1109 | 86 | 1154 | 9 | 8 | 88.8889 | |
| ghariani-varprowl | INDEL | D1_5 | map_l125_m2_e1 | * | 91.8807 | 95.8513 | 88.2259 | 89.6373 | 1109 | 48 | 1109 | 148 | 28 | 18.9189 | |
| raldana-dualsentieon | INDEL | I6_15 | HG002complexvar | hetalt | 95.1115 | 90.6787 | 100.0000 | 54.5670 | 1109 | 114 | 1149 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.0423 | 85.9024 | 99.1274 | 31.9073 | 1109 | 182 | 1136 | 10 | 8 | 80.0000 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m2_e1 | het | 91.0922 | 87.4606 | 95.0385 | 88.5235 | 1109 | 159 | 1111 | 58 | 6 | 10.3448 | |
| asubramanian-gatk | INDEL | * | map_l125_m1_e0 | het | 88.1603 | 83.0712 | 93.9138 | 91.7400 | 1109 | 226 | 1111 | 72 | 7 | 9.7222 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.0159 | 93.8240 | 98.3126 | 56.1185 | 1109 | 73 | 1107 | 19 | 18 | 94.7368 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.3978 | 94.1426 | 96.6870 | 72.1399 | 1109 | 69 | 1109 | 38 | 29 | 76.3158 | |
| jmaeng-gatk | INDEL | I6_15 | HG002complexvar | hetalt | 95.0665 | 90.5969 | 100.0000 | 53.0086 | 1108 | 115 | 1148 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | D1_5 | map_l125_m2_e0 | * | 98.0968 | 96.9379 | 99.2838 | 80.1281 | 1108 | 35 | 1109 | 8 | 1 | 12.5000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 91.9839 | 85.7475 | 99.1986 | 31.0197 | 1107 | 184 | 1114 | 9 | 9 | 100.0000 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 24.1770 | 18.1983 | 36.0063 | 77.7972 | 1107 | 4976 | 1374 | 2442 | 776 | 31.7772 | |
| gduggal-bwavard | INDEL | D1_5 | map_siren | homalt | 97.1880 | 94.7774 | 99.7245 | 70.3593 | 1107 | 61 | 1086 | 3 | 3 | 100.0000 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.6636 | 97.0202 | 98.3156 | 79.8607 | 1107 | 34 | 1109 | 19 | 14 | 73.6842 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l125_m2_e1 | * | 97.4484 | 95.6785 | 99.2851 | 80.9823 | 1107 | 50 | 1111 | 8 | 2 | 25.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.7133 | 97.7896 | 99.6546 | 56.8394 | 1106 | 25 | 1154 | 4 | 4 | 100.0000 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 79.0971 | 72.2876 | 87.3228 | 83.3661 | 1106 | 424 | 1109 | 161 | 148 | 91.9255 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 79.0971 | 72.2876 | 87.3228 | 83.3661 | 1106 | 424 | 1109 | 161 | 148 | 91.9255 | |
| gduggal-snapvard | INDEL | D1_5 | map_l125_m2_e1 | * | 88.0989 | 95.5920 | 81.6951 | 88.4146 | 1106 | 51 | 1388 | 311 | 102 | 32.7974 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.9274 | 98.0496 | 99.8211 | 42.1025 | 1106 | 22 | 1116 | 2 | 2 | 100.0000 | |
| mlin-fermikit | INDEL | D1_5 | HG002complexvar | hetalt | 89.3834 | 81.7308 | 98.6171 | 71.1327 | 1105 | 247 | 1141 | 16 | 16 | 100.0000 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 56.1509 | 52.5940 | 60.2239 | 47.9612 | 1105 | 996 | 1614 | 1066 | 694 | 65.1032 | |
| gduggal-bwavard | INDEL | D1_5 | map_l125_m2_e0 | * | 92.6484 | 96.6754 | 88.9435 | 89.1467 | 1105 | 38 | 1086 | 135 | 19 | 14.0741 | |
| gduggal-bwavard | INDEL | I16_PLUS | * | homalt | 81.4493 | 70.7880 | 95.8916 | 51.4843 | 1105 | 456 | 1097 | 47 | 14 | 29.7872 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.8372 | 97.7011 | 100.0000 | 42.2937 | 1105 | 26 | 1112 | 0 | 0 | ||
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 80.5507 | 87.9777 | 74.2800 | 74.5872 | 1105 | 151 | 1109 | 384 | 374 | 97.3958 | |
| gduggal-snapfb | INDEL | D1_5 | map_l125_m2_e0 | * | 96.0014 | 96.6754 | 95.3368 | 86.9241 | 1105 | 38 | 1104 | 54 | 9 | 16.6667 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.8372 | 97.7011 | 100.0000 | 42.5246 | 1105 | 26 | 1111 | 0 | 0 | ||
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 69.9723 | 87.2727 | 58.3961 | 90.3865 | 1104 | 161 | 1085 | 773 | 47 | 6.0802 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 52.9926 | 40.3952 | 77.0079 | 55.5166 | 1104 | 1629 | 978 | 292 | 97 | 33.2192 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 73.2107 | 79.5963 | 67.7737 | 81.2197 | 1104 | 283 | 1102 | 524 | 4 | 0.7634 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 95.4707 | 92.3849 | 98.7698 | 48.9915 | 1104 | 91 | 1124 | 14 | 13 | 92.8571 | |
| anovak-vg | INDEL | * | HG002complexvar | hetalt | 0.0000 | 29.8459 | 0.0000 | 0.0000 | 1104 | 2595 | 0 | 0 | 0 | ||
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.7919 | 97.6127 | 100.0000 | 42.4274 | 1104 | 27 | 1110 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.7466 | 97.5243 | 100.0000 | 41.8848 | 1103 | 28 | 1110 | 0 | 0 | ||
| ckim-vqsr | INDEL | D1_5 | map_l125_m2_e0 | * | 96.7133 | 96.5004 | 96.9271 | 91.1664 | 1103 | 40 | 1104 | 35 | 5 | 14.2857 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 44.6735 | 50.6428 | 39.9631 | 53.8471 | 1103 | 1075 | 3030 | 4552 | 3067 | 67.3770 | |
| anovak-vg | INDEL | * | map_l100_m2_e0 | homalt | 76.7170 | 87.3910 | 68.3667 | 80.9419 | 1102 | 159 | 1126 | 521 | 485 | 93.0902 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 85.1623 | 100.0000 | 1102 | 192 | 0 | 0 | 0 | ||||
| mlin-fermikit | SNP | tv | map_l125_m0_e0 | homalt | 55.7975 | 49.6173 | 63.7363 | 55.1608 | 1102 | 1119 | 1102 | 627 | 574 | 91.5470 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.1020 | 85.3602 | 100.0000 | 31.3904 | 1102 | 189 | 1130 | 0 | 0 | ||
| anovak-vg | INDEL | D1_5 | map_l100_m2_e0 | het | 83.2747 | 87.6592 | 79.3079 | 85.1214 | 1101 | 155 | 1123 | 293 | 93 | 31.7406 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.6559 | 97.3475 | 100.0000 | 41.6139 | 1101 | 30 | 1107 | 0 | 0 | ||
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 0.0000 | 92.1339 | 0.0000 | 0.0000 | 1101 | 94 | 0 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | I16_PLUS | HG002complexvar | * | 90.6795 | 84.1100 | 98.3622 | 53.8256 | 1101 | 208 | 1021 | 17 | 16 | 94.1176 | |