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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
53651-53700 / 86044 show all | |||||||||||||||
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.5783 | 99.7296 | 99.4274 | 58.3882 | 2951 | 8 | 2952 | 17 | 2 | 11.7647 | |
| egarrison-hhga | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 87.0968 | 77.1429 | 100.0000 | 90.2174 | 27 | 8 | 27 | 0 | 0 | ||
| egarrison-hhga | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 98.6616 | 98.4733 | 98.8506 | 65.3846 | 516 | 8 | 516 | 6 | 5 | 83.3333 | |
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.4951 | 99.4232 | 99.5671 | 63.4301 | 1379 | 8 | 1380 | 6 | 2 | 33.3333 | |
| egarrison-hhga | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | * | 86.0759 | 80.9524 | 91.8919 | 88.7195 | 34 | 8 | 34 | 3 | 2 | 66.6667 | |
| egarrison-hhga | SNP | tv | map_l250_m1_e0 | homalt | 99.4138 | 99.0654 | 99.7647 | 86.4065 | 848 | 8 | 848 | 2 | 2 | 100.0000 | |
| egarrison-hhga | SNP | tv | map_l250_m2_e0 | homalt | 99.4647 | 99.1462 | 99.7852 | 87.5551 | 929 | 8 | 929 | 2 | 2 | 100.0000 | |
| egarrison-hhga | SNP | tv | map_l250_m2_e1 | homalt | 99.4698 | 99.1543 | 99.7872 | 87.6462 | 938 | 8 | 938 | 2 | 2 | 100.0000 | |
| eyeh-varpipe | INDEL | * | map_l125_m0_e0 | homalt | 96.8008 | 97.1831 | 96.4215 | 89.3815 | 276 | 8 | 485 | 18 | 16 | 88.8889 | |
| eyeh-varpipe | INDEL | * | tech_badpromoters | * | 91.9970 | 89.4737 | 94.6667 | 86.9110 | 68 | 8 | 71 | 4 | 4 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_l125_m0_e0 | hetalt | 0.0000 | 100.0000 | 0 | 8 | 0 | 0 | 0 | ||||
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.6989 | 99.4660 | 99.9329 | 79.6894 | 1490 | 8 | 1490 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 98.0429 | 96.5665 | 99.5652 | 76.4344 | 225 | 8 | 229 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.8527 | 99.9044 | 97.8230 | 55.8586 | 8358 | 8 | 8358 | 186 | 184 | 98.9247 | |
| dgrover-gatk | INDEL | * | map_l100_m0_e0 | homalt | 98.1391 | 98.4283 | 97.8516 | 85.3798 | 501 | 8 | 501 | 11 | 5 | 45.4545 | |
| dgrover-gatk | INDEL | * | map_l125_m1_e0 | homalt | 98.9747 | 98.9071 | 99.0424 | 86.2723 | 724 | 8 | 724 | 7 | 4 | 57.1429 | |
| dgrover-gatk | INDEL | * | map_l125_m2_e0 | homalt | 98.8867 | 98.9515 | 98.8220 | 87.0968 | 755 | 8 | 755 | 9 | 4 | 44.4444 | |
| dgrover-gatk | INDEL | * | map_l125_m2_e1 | homalt | 98.9025 | 98.9664 | 98.8387 | 87.1943 | 766 | 8 | 766 | 9 | 4 | 44.4444 | |
| dgrover-gatk | INDEL | * | map_l150_m1_e0 | homalt | 98.4816 | 98.2684 | 98.6957 | 88.7778 | 454 | 8 | 454 | 6 | 3 | 50.0000 | |
| dgrover-gatk | INDEL | * | map_l150_m2_e0 | homalt | 98.5417 | 98.3368 | 98.7474 | 89.6834 | 473 | 8 | 473 | 6 | 3 | 50.0000 | |
| dgrover-gatk | INDEL | * | map_l150_m2_e1 | homalt | 98.4741 | 98.3740 | 98.5743 | 89.6632 | 484 | 8 | 484 | 7 | 4 | 57.1429 | |
| dgrover-gatk | INDEL | * | map_l250_m1_e0 | het | 95.2880 | 95.7895 | 94.7917 | 96.7022 | 182 | 8 | 182 | 10 | 1 | 10.0000 | |
| dgrover-gatk | INDEL | * | map_l250_m2_e0 | het | 95.7346 | 96.1905 | 95.2830 | 96.8183 | 202 | 8 | 202 | 10 | 1 | 10.0000 | |
| dgrover-gatk | INDEL | * | map_l250_m2_e1 | het | 95.7547 | 96.2085 | 95.3052 | 96.8873 | 203 | 8 | 203 | 10 | 1 | 10.0000 | |
| dgrover-gatk | INDEL | * | segdup | hetalt | 96.8254 | 93.8462 | 100.0000 | 94.7679 | 122 | 8 | 124 | 0 | 0 | ||
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.0391 | 99.4096 | 96.7059 | 82.8744 | 1347 | 8 | 1233 | 42 | 28 | 66.6667 | |
| dgrover-gatk | INDEL | D16_PLUS | map_l100_m1_e0 | * | 86.8132 | 90.8046 | 83.1579 | 94.5371 | 79 | 8 | 79 | 16 | 4 | 25.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | map_l100_m2_e0 | * | 86.7725 | 91.1111 | 82.8283 | 95.1111 | 82 | 8 | 82 | 17 | 4 | 23.5294 | |
| dgrover-gatk | INDEL | D1_5 | HG002complexvar | homalt | 99.8963 | 99.9245 | 99.8680 | 60.1555 | 10590 | 8 | 10595 | 14 | 12 | 85.7143 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.9381 | 98.9362 | 93.1164 | 62.2579 | 744 | 8 | 744 | 55 | 55 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | map_l150_m2_e1 | het | 98.0028 | 98.4674 | 97.5425 | 90.6603 | 514 | 8 | 516 | 13 | 2 | 15.3846 | |
| dgrover-gatk | INDEL | D6_15 | * | homalt | 98.8732 | 99.8735 | 97.8928 | 55.5601 | 6318 | 8 | 6318 | 136 | 134 | 98.5294 | |
| ckim-isaac | SNP | * | tech_badpromoters | homalt | 94.7368 | 90.0000 | 100.0000 | 24.2105 | 72 | 8 | 72 | 0 | 0 | ||
| ckim-isaac | SNP | ti | lowcmp_SimpleRepeat_diTR_51to200 | * | 64.0000 | 50.0000 | 88.8889 | 96.9697 | 8 | 8 | 8 | 1 | 0 | 0.0000 | |
| ckim-isaac | SNP | ti | map_l100_m0_e0 | hetalt | 60.0000 | 42.8571 | 100.0000 | 77.7778 | 6 | 8 | 6 | 0 | 0 | ||
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9026 | 99.9292 | 99.8761 | 56.3916 | 11288 | 8 | 11288 | 14 | 13 | 92.8571 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.1537 | 99.4096 | 96.9291 | 83.2983 | 1347 | 8 | 1231 | 39 | 30 | 76.9231 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.9234 | 99.0868 | 91.0959 | 82.4814 | 868 | 8 | 665 | 65 | 61 | 93.8462 | |
| ckim-vqsr | INDEL | D16_PLUS | map_l100_m2_e1 | * | 90.3553 | 91.7526 | 89.0000 | 95.7301 | 89 | 8 | 89 | 11 | 4 | 36.3636 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6913 | 98.9362 | 92.6526 | 62.3535 | 744 | 8 | 744 | 59 | 58 | 98.3051 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5135 | 99.4812 | 99.5457 | 78.2406 | 1534 | 8 | 1534 | 7 | 5 | 71.4286 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.6293 | 99.8437 | 97.4442 | 51.1779 | 5109 | 8 | 5109 | 134 | 133 | 99.2537 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9116 | 99.9214 | 99.9018 | 54.3272 | 10170 | 8 | 10170 | 10 | 10 | 100.0000 | |
| ckim-vqsr | INDEL | D1_5 | map_l100_m2_e0 | hetalt | 90.9091 | 83.3333 | 100.0000 | 91.9922 | 40 | 8 | 41 | 0 | 0 | ||
| ckim-vqsr | INDEL | D6_15 | * | homalt | 98.8887 | 99.8735 | 97.9231 | 55.6564 | 6318 | 8 | 6318 | 134 | 131 | 97.7612 | |
| ckim-vqsr | INDEL | D6_15 | segdup | * | 96.0630 | 95.8115 | 96.3158 | 95.0955 | 183 | 8 | 183 | 7 | 4 | 57.1429 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.4164 | 98.7673 | 96.1019 | 68.3886 | 641 | 8 | 641 | 26 | 26 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | map_l125_m0_e0 | * | 96.9502 | 97.4194 | 96.4856 | 92.5352 | 302 | 8 | 302 | 11 | 1 | 9.0909 | |
| ckim-vqsr | INDEL | I1_5 | map_l125_m0_e0 | het | 95.5844 | 95.8333 | 95.3368 | 94.0906 | 184 | 8 | 184 | 9 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 95.4149 | 94.6309 | 96.2121 | 77.5128 | 141 | 8 | 127 | 5 | 3 | 60.0000 | |