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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
73151-73200 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | * | map_l100_m0_e0 | * | 91.6436 | 88.3557 | 95.1857 | 96.6934 | 1381 | 182 | 1384 | 70 | 8 | 11.4286 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 90.2544 | 90.2041 | 90.3047 | 58.2659 | 663 | 72 | 652 | 70 | 64 | 91.4286 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.5522 | 94.7192 | 98.4575 | 25.9492 | 4520 | 252 | 4532 | 71 | 69 | 97.1831 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 97.9067 | 99.3856 | 96.4712 | 41.4606 | 1941 | 12 | 1941 | 71 | 67 | 94.3662 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.2930 | 95.5286 | 99.1239 | 61.6524 | 8033 | 376 | 8033 | 71 | 62 | 87.3239 | |
| anovak-vg | SNP | * | map_l150_m2_e0 | homalt | 88.0238 | 79.0922 | 99.2294 | 72.9596 | 9253 | 2446 | 9143 | 71 | 59 | 83.0986 | |
| anovak-vg | SNP | * | map_l150_m2_e1 | homalt | 88.0784 | 79.1748 | 99.2382 | 72.9549 | 9364 | 2463 | 9249 | 71 | 59 | 83.0986 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 97.9681 | 98.4772 | 97.4643 | 37.2197 | 2716 | 42 | 2729 | 71 | 52 | 73.2394 | |
| asubramanian-gatk | SNP | ti | map_siren | * | 78.3158 | 64.4054 | 99.8903 | 68.2204 | 64634 | 35721 | 64622 | 71 | 23 | 32.3944 | |
| asubramanian-gatk | SNP | ti | map_siren | het | 80.0204 | 66.7709 | 99.8298 | 71.1364 | 41653 | 20729 | 41647 | 71 | 23 | 32.3944 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.1847 | 93.8543 | 94.5174 | 64.2660 | 1237 | 81 | 1224 | 71 | 68 | 95.7746 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.4810 | 98.9726 | 90.3794 | 82.0961 | 867 | 9 | 667 | 71 | 69 | 97.1831 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 89.9721 | 88.4125 | 91.5877 | 56.8507 | 763 | 100 | 773 | 71 | 41 | 57.7465 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 21.1214 | 16.8539 | 28.2828 | 55.6054 | 30 | 148 | 28 | 71 | 27 | 38.0282 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.6966 | 92.5757 | 96.9171 | 59.1377 | 2232 | 179 | 2232 | 71 | 67 | 94.3662 | |
| eyeh-varpipe | SNP | ti | map_l250_m2_e1 | * | 99.0209 | 99.4484 | 98.5971 | 90.5779 | 5048 | 28 | 4990 | 71 | 6 | 8.4507 | |
| eyeh-varpipe | SNP | tv | HG002compoundhet | homalt | 96.9051 | 99.4687 | 94.4704 | 53.4614 | 3370 | 18 | 1213 | 71 | 32 | 45.0704 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 68.4671 | 69.3780 | 67.5799 | 76.7516 | 145 | 64 | 148 | 71 | 49 | 69.0141 | |
| gduggal-bwaplat | INDEL | D6_15 | HG002complexvar | het | 81.8591 | 70.8654 | 96.8901 | 67.2923 | 2211 | 909 | 2212 | 71 | 24 | 33.8028 | |
| gduggal-bwaplat | SNP | tv | HG002compoundhet | homalt | 94.3411 | 91.1747 | 97.7352 | 50.1035 | 3089 | 299 | 3064 | 71 | 67 | 94.3662 | |
| gduggal-bwaplat | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 82.0473 | 70.6121 | 97.9019 | 63.3528 | 3311 | 1378 | 3313 | 71 | 11 | 15.4930 | |
| eyeh-varpipe | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 0.0000 | 0.0000 | 61.8280 | 95.2210 | 0 | 0 | 115 | 71 | 46 | 64.7887 | |
| eyeh-varpipe | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 0.0000 | 0.0000 | 61.8280 | 95.2210 | 0 | 0 | 115 | 71 | 46 | 64.7887 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 91.6227 | 96.5092 | 87.2072 | 59.1912 | 470 | 17 | 484 | 71 | 70 | 98.5915 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 80.3666 | 72.7564 | 89.7547 | 59.7561 | 2270 | 850 | 622 | 71 | 71 | 100.0000 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 83.8326 | 78.4242 | 90.0421 | 57.6603 | 647 | 178 | 642 | 71 | 69 | 97.1831 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 83.8326 | 78.4242 | 90.0421 | 57.6603 | 647 | 178 | 642 | 71 | 69 | 97.1831 | |
| gduggal-bwafb | SNP | ti | HG002compoundhet | homalt | 99.3188 | 99.5943 | 99.0449 | 33.6250 | 7364 | 30 | 7363 | 71 | 58 | 81.6901 | |
| ltrigg-rtg1 | SNP | ti | map_l100_m1_e0 | het | 99.0192 | 98.2900 | 99.7593 | 54.6205 | 29430 | 512 | 29432 | 71 | 7 | 9.8592 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 97.5565 | 95.7135 | 99.4720 | 43.1314 | 13174 | 590 | 13375 | 71 | 70 | 98.5915 | |
| jmaeng-gatk | SNP | tv | HG002complexvar | het | 99.6867 | 99.4221 | 99.9526 | 22.2557 | 149860 | 871 | 149782 | 71 | 16 | 22.5352 | |
| jmaeng-gatk | INDEL | I16_PLUS | HG002compoundhet | * | 94.0923 | 91.7872 | 96.5162 | 52.1372 | 1967 | 176 | 1967 | 71 | 70 | 98.5915 | |
| jli-custom | SNP | * | map_l150_m0_e0 | het | 98.2666 | 97.4559 | 99.0908 | 76.5432 | 7738 | 202 | 7738 | 71 | 22 | 30.9859 | |
| jli-custom | SNP | tv | map_l150_m1_e0 | * | 99.0626 | 98.7812 | 99.3456 | 71.0917 | 10779 | 133 | 10778 | 71 | 23 | 32.3944 | |
| jli-custom | SNP | tv | map_l150_m2_e0 | het | 98.7416 | 98.4694 | 99.0154 | 74.3882 | 7141 | 111 | 7140 | 71 | 19 | 26.7606 | |
| jli-custom | SNP | tv | map_l150_m2_e1 | het | 98.7581 | 98.4894 | 99.0283 | 74.4439 | 7237 | 111 | 7236 | 71 | 19 | 26.7606 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.0232 | 93.5508 | 94.5004 | 64.2877 | 1233 | 85 | 1220 | 71 | 68 | 95.7746 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.1054 | 98.7352 | 99.4784 | 63.8767 | 13583 | 174 | 13541 | 71 | 56 | 78.8732 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.2647 | 99.7712 | 98.7633 | 53.6568 | 5668 | 13 | 5670 | 71 | 69 | 97.1831 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.1054 | 98.7352 | 99.4784 | 63.8767 | 13583 | 174 | 13541 | 71 | 56 | 78.8732 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.6069 | 99.7147 | 97.5235 | 50.6371 | 2796 | 8 | 2796 | 71 | 71 | 100.0000 | |
| egarrison-hhga | INDEL | I6_15 | * | hetalt | 95.1738 | 91.5448 | 99.1023 | 37.9004 | 7828 | 723 | 7838 | 71 | 63 | 88.7324 | |
| egarrison-hhga | SNP | ti | map_l100_m2_e0 | * | 99.5647 | 99.2770 | 99.8541 | 64.5210 | 48607 | 354 | 48608 | 71 | 32 | 45.0704 | |
| ckim-isaac | INDEL | D1_5 | HG002compoundhet | hetalt | 92.5735 | 86.7561 | 99.2273 | 35.2319 | 8863 | 1353 | 9117 | 71 | 65 | 91.5493 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 91.7285 | 85.5171 | 98.9129 | 30.0899 | 6135 | 1039 | 6460 | 71 | 61 | 85.9155 | |
| ckim-isaac | INDEL | I6_15 | HG002complexvar | homalt | 79.2387 | 69.4399 | 92.2574 | 47.0554 | 843 | 371 | 846 | 71 | 37 | 52.1127 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3478 | 99.3571 | 99.3386 | 42.1628 | 10663 | 69 | 10663 | 71 | 1 | 1.4085 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2237 | 99.4958 | 98.9530 | 45.8387 | 6710 | 34 | 6710 | 71 | 1 | 1.4085 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 87.5573 | 82.7344 | 92.9773 | 75.9228 | 944 | 197 | 940 | 71 | 43 | 60.5634 | |
| ckim-vqsr | SNP | ti | map_l125_m0_e0 | * | 64.3231 | 47.6728 | 98.8465 | 91.2321 | 6084 | 6678 | 6084 | 71 | 0 | 0.0000 | |