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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
68401-68450 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.0707 | 96.2145 | 100.0000 | 78.9928 | 915 | 36 | 876 | 0 | 0 | ||
| hfeng-pmm2 | SNP | * | map_l250_m1_e0 | het | 98.0709 | 98.3596 | 97.7838 | 90.2767 | 4677 | 78 | 4677 | 106 | 9 | 8.4906 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.0710 | 97.8937 | 98.2489 | 60.0570 | 15709 | 338 | 15710 | 280 | 267 | 95.3571 | |
| dgrover-gatk | SNP | tv | map_l250_m1_e0 | * | 98.0711 | 97.9600 | 98.1825 | 89.6431 | 2593 | 54 | 2593 | 48 | 11 | 22.9167 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.0712 | 99.8632 | 96.3424 | 50.4716 | 5110 | 7 | 5110 | 194 | 193 | 99.4845 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.0713 | 96.5190 | 99.6743 | 72.7111 | 305 | 11 | 306 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | * | map_l100_m2_e1 | het | 98.0718 | 98.6342 | 97.5158 | 86.6842 | 2311 | 32 | 2316 | 59 | 11 | 18.6441 | |
| gduggal-bwavard | SNP | tv | map_l250_m2_e1 | homalt | 98.0718 | 96.8288 | 99.3471 | 88.1389 | 916 | 30 | 913 | 6 | 4 | 66.6667 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l100_m0_e0 | * | 98.0718 | 98.1584 | 97.9853 | 81.8544 | 533 | 10 | 535 | 11 | 1 | 9.0909 | |
| asubramanian-gatk | SNP | * | segdup | het | 98.0720 | 96.9394 | 99.2313 | 93.3046 | 16787 | 530 | 16781 | 130 | 4 | 3.0769 | |
| gduggal-snapvard | SNP | tv | map_l125_m2_e0 | homalt | 98.0723 | 96.4102 | 99.7927 | 68.8173 | 5801 | 216 | 5778 | 12 | 9 | 75.0000 | |
| eyeh-varpipe | INDEL | D1_5 | map_l125_m2_e1 | homalt | 98.0724 | 98.3871 | 97.7597 | 87.9775 | 366 | 6 | 480 | 11 | 10 | 90.9091 | |
| asubramanian-gatk | SNP | * | HG002complexvar | homalt | 98.0724 | 96.2540 | 99.9608 | 20.3588 | 277764 | 10810 | 277740 | 109 | 23 | 21.1009 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.0728 | 96.5190 | 99.6774 | 73.3677 | 305 | 11 | 309 | 1 | 1 | 100.0000 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.0729 | 97.4752 | 98.6779 | 47.9442 | 20076 | 520 | 20077 | 269 | 262 | 97.3978 | |
| hfeng-pmm3 | SNP | * | map_l250_m0_e0 | het | 98.0731 | 98.0080 | 98.1383 | 92.9489 | 1476 | 30 | 1476 | 28 | 1 | 3.5714 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.0736 | 97.1040 | 99.0627 | 73.0656 | 19012 | 567 | 19025 | 180 | 21 | 11.6667 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.0736 | 97.1040 | 99.0627 | 73.0656 | 19012 | 567 | 19025 | 180 | 21 | 11.6667 | |
| gduggal-bwafb | SNP | tv | map_l125_m0_e0 | * | 98.0737 | 98.2808 | 97.8675 | 77.6619 | 6517 | 114 | 6517 | 142 | 29 | 20.4225 | |
| hfeng-pmm3 | INDEL | D6_15 | * | * | 98.0738 | 96.8879 | 99.2891 | 51.0206 | 25280 | 812 | 25279 | 181 | 162 | 89.5028 | |
| eyeh-varpipe | INDEL | D1_5 | map_l150_m2_e0 | het | 98.0741 | 98.6381 | 97.5166 | 87.5310 | 507 | 7 | 589 | 15 | 5 | 33.3333 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.0742 | 96.5582 | 99.6386 | 56.1134 | 30327 | 1081 | 30328 | 110 | 94 | 85.4545 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.0742 | 96.5582 | 99.6386 | 56.1134 | 30327 | 1081 | 30328 | 110 | 94 | 85.4545 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.0746 | 98.4739 | 97.6786 | 54.4653 | 24972 | 387 | 25036 | 595 | 449 | 75.4622 | |
| eyeh-varpipe | SNP | tv | * | het | 98.0748 | 99.9564 | 96.2628 | 25.2886 | 591446 | 258 | 583371 | 22648 | 112 | 0.4945 | |
| hfeng-pmm2 | INDEL | I16_PLUS | * | homalt | 98.0751 | 99.5516 | 96.6418 | 69.9214 | 1554 | 7 | 1554 | 54 | 51 | 94.4444 | |
| gduggal-snapfb | INDEL | I1_5 | map_siren | homalt | 98.0751 | 98.6799 | 97.4776 | 83.6569 | 1196 | 16 | 1198 | 31 | 13 | 41.9355 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.0752 | 97.9853 | 98.1651 | 74.8500 | 535 | 11 | 535 | 10 | 7 | 70.0000 | |
| asubramanian-gatk | SNP | tv | HG002complexvar | * | 98.0754 | 96.2442 | 99.9776 | 22.6117 | 236907 | 9245 | 236824 | 53 | 18 | 33.9623 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.0755 | 97.3713 | 98.7899 | 89.5852 | 889 | 24 | 898 | 11 | 9 | 81.8182 | |
| ckim-dragen | SNP | * | map_l125_m0_e0 | * | 98.0759 | 98.7207 | 97.4394 | 76.5498 | 19137 | 248 | 19141 | 503 | 56 | 11.1332 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.0761 | 97.2854 | 98.8798 | 74.4855 | 1326 | 37 | 1324 | 15 | 8 | 53.3333 | |
| egarrison-hhga | INDEL | D1_5 | map_l100_m1_e0 | * | 98.0764 | 97.9437 | 98.2094 | 82.9273 | 1810 | 38 | 1810 | 33 | 12 | 36.3636 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.0766 | 96.6507 | 99.5451 | 88.1460 | 2626 | 91 | 2626 | 12 | 11 | 91.6667 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.0769 | 99.5816 | 96.6171 | 61.4099 | 714 | 3 | 714 | 25 | 24 | 96.0000 | |
| bgallagher-sentieon | SNP | * | tech_badpromoters | * | 98.0769 | 97.4522 | 98.7097 | 49.3464 | 153 | 4 | 153 | 2 | 2 | 100.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.0769 | 98.0769 | 98.0769 | 77.7778 | 51 | 1 | 51 | 1 | 1 | 100.0000 | |
| ckim-dragen | SNP | * | tech_badpromoters | * | 98.0769 | 97.4522 | 98.7097 | 43.8406 | 153 | 4 | 153 | 2 | 2 | 100.0000 | |
| raldana-dualsentieon | SNP | * | tech_badpromoters | * | 98.0769 | 97.4522 | 98.7097 | 46.1806 | 153 | 4 | 153 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.0769 | 100.0000 | 96.2264 | 77.1879 | 153 | 0 | 153 | 6 | 5 | 83.3333 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.0769 | 100.0000 | 96.2264 | 77.0893 | 153 | 0 | 153 | 6 | 5 | 83.3333 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | * | homalt | 98.0769 | 96.5130 | 99.6923 | 55.5890 | 1633 | 59 | 1620 | 5 | 5 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.0769 | 97.6077 | 98.5507 | 70.1299 | 204 | 5 | 204 | 3 | 0 | 0.0000 | |
| jmaeng-gatk | SNP | * | tech_badpromoters | * | 98.0769 | 97.4522 | 98.7097 | 47.6351 | 153 | 4 | 153 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | tv | HG002complexvar | homalt | 98.0771 | 96.2349 | 99.9913 | 23.4384 | 91530 | 3581 | 91516 | 8 | 6 | 75.0000 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 98.0772 | 97.3214 | 98.8449 | 61.2532 | 1199 | 33 | 1198 | 14 | 12 | 85.7143 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 98.0772 | 97.3214 | 98.8449 | 61.5726 | 1199 | 33 | 1198 | 14 | 12 | 85.7143 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.0772 | 96.5750 | 99.6268 | 81.0951 | 4004 | 142 | 4004 | 15 | 7 | 46.6667 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.0773 | 99.6780 | 96.5272 | 70.4668 | 2167 | 7 | 2168 | 78 | 5 | 6.4103 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l100_m1_e0 | het | 98.0780 | 97.0223 | 99.1568 | 79.7611 | 1173 | 36 | 1176 | 10 | 0 | 0.0000 | |