PrecisionFDA
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
66651-66700 / 86044 show all | |||||||||||||||
| gduggal-bwavard | INDEL | I1_5 | map_siren | homalt | 96.9037 | 94.3069 | 99.6476 | 66.3105 | 1143 | 69 | 1131 | 4 | 2 | 50.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l125_m2_e1 | * | 98.0069 | 97.7528 | 98.2624 | 85.8582 | 1131 | 26 | 1131 | 20 | 8 | 40.0000 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 94.7018 | 96.2862 | 93.1687 | 88.3587 | 1063 | 41 | 1132 | 83 | 31 | 37.3494 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 53.6696 | 72.8723 | 42.4765 | 23.3535 | 137 | 51 | 1132 | 1533 | 1532 | 99.9348 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 68.7500 | 53.2425 | 97.0034 | 79.7187 | 1133 | 995 | 1133 | 35 | 29 | 82.8571 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l125_m2_e1 | * | 98.2208 | 97.7528 | 98.6934 | 85.3084 | 1131 | 26 | 1133 | 15 | 4 | 26.6667 | |
| eyeh-varpipe | INDEL | * | map_l125_m2_e1 | homalt | 96.9786 | 97.2868 | 96.6724 | 87.1688 | 753 | 21 | 1133 | 39 | 35 | 89.7436 | |
| cchapple-custom | INDEL | D1_5 | map_siren | homalt | 98.7468 | 98.0308 | 99.4732 | 77.4812 | 1145 | 23 | 1133 | 6 | 4 | 66.6667 | |
| gduggal-snapvard | INDEL | I1_5 | map_siren | homalt | 93.7374 | 88.6964 | 99.3860 | 68.7586 | 1075 | 137 | 1133 | 7 | 4 | 57.1429 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 85.7476 | 75.5007 | 99.2126 | 87.1486 | 1131 | 367 | 1134 | 9 | 8 | 88.8889 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l125_m2_e0 | * | 98.9520 | 99.0376 | 98.8666 | 84.6288 | 1132 | 11 | 1134 | 13 | 3 | 23.0769 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 84.4118 | 79.2549 | 90.2866 | 33.4746 | 936 | 245 | 1134 | 122 | 120 | 98.3607 | |
| anovak-vg | INDEL | D1_5 | map_l100_m2_e1 | het | 83.2523 | 87.6183 | 79.3007 | 85.1706 | 1111 | 157 | 1134 | 296 | 94 | 31.7568 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 78.5568 | 68.4713 | 92.1266 | 57.1031 | 645 | 297 | 1135 | 97 | 92 | 94.8454 | |
| gduggal-snapplat | INDEL | * | map_l125_m2_e1 | het | 80.8011 | 75.4972 | 86.9066 | 94.1914 | 1063 | 345 | 1135 | 171 | 24 | 14.0351 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 84.1998 | 75.5674 | 95.0586 | 89.6740 | 1132 | 366 | 1135 | 59 | 25 | 42.3729 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 42.7404 | 30.1771 | 73.2258 | 61.7378 | 1176 | 2721 | 1135 | 415 | 63 | 15.1807 | |
| eyeh-varpipe | INDEL | * | map_l150_m2_e0 | het | 96.7930 | 96.5784 | 97.0085 | 88.1973 | 875 | 31 | 1135 | 35 | 18 | 51.4286 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l125_m2_e0 | * | 98.3954 | 99.1251 | 97.6764 | 86.9350 | 1133 | 10 | 1135 | 27 | 4 | 14.8148 | |
| 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 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l125_m2_e0 | * | 98.6532 | 99.2126 | 98.1002 | 87.4743 | 1134 | 9 | 1136 | 22 | 5 | 22.7273 | |
| mlin-fermikit | INDEL | D6_15 | HG002complexvar | homalt | 89.0670 | 95.2951 | 83.6029 | 66.2028 | 1114 | 55 | 1137 | 223 | 214 | 95.9641 | |
| ckim-isaac | SNP | tv | map_l250_m1_e0 | * | 60.0000 | 42.9543 | 99.4751 | 90.6960 | 1137 | 1510 | 1137 | 6 | 1 | 16.6667 | |
| egarrison-hhga | INDEL | D1_5 | map_l125_m2_e1 | * | 98.3578 | 98.3578 | 98.3578 | 86.6797 | 1138 | 19 | 1138 | 19 | 6 | 31.5789 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 87.7499 | 80.8367 | 95.9562 | 58.8989 | 599 | 142 | 1139 | 48 | 25 | 52.0833 | |
| jmaeng-gatk | SNP | tv | map_l250_m2_e0 | het | 72.5709 | 58.7113 | 94.9958 | 96.9665 | 1139 | 801 | 1139 | 60 | 1 | 1.6667 | |
| jmaeng-gatk | INDEL | D1_5 | map_l125_m2_e1 | * | 96.2418 | 98.3578 | 94.2149 | 90.9091 | 1138 | 19 | 1140 | 70 | 6 | 8.5714 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.6376 | 96.4467 | 94.8419 | 58.7509 | 1140 | 42 | 1140 | 62 | 60 | 96.7742 | |
| gduggal-bwavard | INDEL | * | map_l100_m1_e0 | homalt | 95.9129 | 92.7465 | 99.3031 | 75.5380 | 1138 | 89 | 1140 | 8 | 5 | 62.5000 | |
| anovak-vg | INDEL | I16_PLUS | * | homalt | 55.6761 | 71.2364 | 45.6948 | 36.9604 | 1112 | 449 | 1141 | 1356 | 1055 | 77.8024 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l125_m2_e1 | * | 98.4031 | 98.4443 | 98.3621 | 86.6144 | 1139 | 18 | 1141 | 19 | 8 | 42.1053 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.4011 | 86.1348 | 99.6507 | 30.4797 | 1112 | 179 | 1141 | 4 | 4 | 100.0000 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 48.4716 | 84.3364 | 34.0089 | 80.1936 | 1093 | 203 | 1141 | 2214 | 143 | 6.4589 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 91.9790 | 96.8591 | 87.5672 | 69.0278 | 1141 | 37 | 1141 | 162 | 155 | 95.6790 | |
| mlin-fermikit | INDEL | D1_5 | HG002complexvar | hetalt | 89.3834 | 81.7308 | 98.6171 | 71.1327 | 1105 | 247 | 1141 | 16 | 16 | 100.0000 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 77.2779 | 63.3540 | 99.0460 | 46.3471 | 1122 | 649 | 1142 | 11 | 11 | 100.0000 | |
| anovak-vg | INDEL | * | map_l100_m2_e1 | homalt | 76.5374 | 87.4317 | 68.0572 | 81.0009 | 1120 | 161 | 1142 | 536 | 499 | 93.0970 | |
| jli-custom | INDEL | D1_5 | map_l125_m2_e1 | * | 98.6603 | 98.6171 | 98.7035 | 86.0971 | 1141 | 16 | 1142 | 15 | 5 | 33.3333 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l100_m1_e0 | het | 97.0745 | 94.7064 | 99.5641 | 73.0054 | 1145 | 64 | 1142 | 5 | 0 | 0.0000 | |
| gduggal-snapplat | SNP | * | map_l250_m0_e0 | het | 82.6147 | 75.6972 | 90.9236 | 97.0301 | 1140 | 366 | 1142 | 114 | 41 | 35.9649 | |
| ckim-gatk | SNP | tv | map_l250_m2_e0 | het | 72.7389 | 58.8660 | 95.1667 | 96.8726 | 1142 | 798 | 1142 | 58 | 1 | 1.7241 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.2063 | 96.6159 | 93.8373 | 59.1611 | 1142 | 40 | 1142 | 75 | 73 | 97.3333 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.1564 | 96.8697 | 99.4778 | 38.9804 | 1145 | 37 | 1143 | 6 | 6 | 100.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | HG002complexvar | homalt | 93.9581 | 97.7759 | 90.4272 | 60.3886 | 1143 | 26 | 1143 | 121 | 72 | 59.5041 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 94.6679 | 92.1212 | 97.3595 | 41.8524 | 304 | 26 | 1143 | 31 | 26 | 83.8710 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 53.2746 | 85.2632 | 38.7403 | 67.1378 | 1134 | 196 | 1144 | 1809 | 1797 | 99.3367 | |
| egarrison-hhga | INDEL | D6_15 | HG002complexvar | homalt | 95.9329 | 97.8614 | 94.0789 | 59.2766 | 1144 | 25 | 1144 | 72 | 43 | 59.7222 | |
| dgrover-gatk | INDEL | D1_5 | map_l125_m2_e1 | * | 98.6196 | 98.7035 | 98.5357 | 88.1988 | 1142 | 15 | 1144 | 17 | 4 | 23.5294 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.7723 | 96.7851 | 94.7804 | 58.3362 | 1144 | 38 | 1144 | 63 | 61 | 96.8254 | |
| ckim-gatk | INDEL | D1_5 | map_l125_m2_e1 | * | 96.1771 | 98.7900 | 93.6989 | 90.7298 | 1143 | 14 | 1145 | 77 | 6 | 7.7922 | |