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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
67201-67250 / 86044 show all | |||||||||||||||
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 61.8938 | 45.0533 | 98.8388 | 35.9607 | 2450 | 2988 | 2128 | 25 | 22 | 88.0000 | |
| ckim-isaac | SNP | * | map_l125_m0_e0 | het | 74.0171 | 58.8677 | 99.6658 | 78.7645 | 7455 | 5209 | 7455 | 25 | 3 | 12.0000 | |
| ckim-isaac | SNP | ti | map_l150_m1_e0 | het | 75.2265 | 60.4123 | 99.6666 | 78.7514 | 7473 | 4897 | 7473 | 25 | 2 | 8.0000 | |
| ckim-isaac | SNP | tv | * | homalt | 98.1562 | 96.3855 | 99.9931 | 16.5795 | 363492 | 13631 | 363515 | 25 | 18 | 72.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.5152 | 99.4428 | 99.5877 | 78.3498 | 6068 | 34 | 6039 | 25 | 11 | 44.0000 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.1217 | 100.0000 | 96.3127 | 73.4013 | 653 | 0 | 653 | 25 | 24 | 96.0000 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 94.4072 | 100.0000 | 89.4068 | 69.4696 | 211 | 0 | 211 | 25 | 24 | 96.0000 | |
| dgrover-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 99.0037 | 98.8395 | 99.1683 | 69.7220 | 2981 | 35 | 2981 | 25 | 8 | 32.0000 | |
| dgrover-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.4457 | 99.4809 | 99.4105 | 79.4316 | 4216 | 22 | 4216 | 25 | 7 | 28.0000 | |
| dgrover-gatk | SNP | ti | map_l250_m0_e0 | * | 97.9517 | 97.7372 | 98.1672 | 93.8664 | 1339 | 31 | 1339 | 25 | 6 | 24.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 97.4782 | 96.3415 | 98.6420 | 70.2969 | 1817 | 69 | 1816 | 25 | 18 | 72.0000 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 87.3498 | 78.5324 | 98.3974 | 44.5432 | 1295 | 354 | 1535 | 25 | 23 | 92.0000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 94.5133 | 90.0694 | 99.4185 | 29.9723 | 4281 | 472 | 4274 | 25 | 22 | 88.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 75.9096 | 68.0162 | 85.8757 | 72.5581 | 168 | 79 | 152 | 25 | 16 | 64.0000 | |
| egarrison-hhga | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.9991 | 98.7265 | 99.2733 | 58.9450 | 3411 | 44 | 3415 | 25 | 14 | 56.0000 | |
| egarrison-hhga | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.1544 | 97.1410 | 99.1891 | 68.9245 | 3058 | 90 | 3058 | 25 | 8 | 32.0000 | |
| egarrison-hhga | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2558 | 98.8879 | 99.6265 | 37.2904 | 6669 | 75 | 6668 | 25 | 12 | 48.0000 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 62.1754 | 45.8288 | 96.6488 | 62.3613 | 423 | 500 | 721 | 25 | 23 | 92.0000 | |
| eyeh-varpipe | INDEL | * | map_l125_m0_e0 | het | 96.8078 | 96.5928 | 97.0238 | 87.4308 | 567 | 20 | 815 | 25 | 12 | 48.0000 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 71.9101 | 94.2875 | 0 | 0 | 64 | 25 | 24 | 96.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7781 | 99.9671 | 99.5898 | 57.9684 | 6070 | 2 | 6070 | 25 | 24 | 96.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.6017 | 95.6643 | 99.6192 | 25.0742 | 6531 | 296 | 6540 | 25 | 24 | 96.0000 | |
| dgrover-gatk | INDEL | D1_5 | map_siren | * | 99.2924 | 99.2916 | 99.2932 | 82.3565 | 3504 | 25 | 3512 | 25 | 5 | 20.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | HG002complexvar | * | 96.3580 | 94.4005 | 98.3985 | 65.2184 | 1551 | 92 | 1536 | 25 | 15 | 60.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.4316 | 96.3170 | 98.5722 | 66.0922 | 1726 | 66 | 1726 | 25 | 17 | 68.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 81.2500 | 70.8752 | 95.1830 | 49.0677 | 494 | 203 | 494 | 25 | 23 | 92.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l125_m1_e0 | het | 97.8277 | 99.0358 | 96.6488 | 86.8244 | 719 | 7 | 721 | 25 | 2 | 8.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l125_m2_e0 | het | 97.9343 | 99.0838 | 96.8112 | 87.3344 | 757 | 7 | 759 | 25 | 2 | 8.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l125_m2_e1 | het | 97.9502 | 99.0909 | 96.8354 | 87.4264 | 763 | 7 | 765 | 25 | 2 | 8.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 89.6142 | 93.7888 | 85.7955 | 36.9176 | 151 | 10 | 151 | 25 | 25 | 100.0000 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5542 | 99.4802 | 99.6283 | 49.3638 | 6698 | 35 | 6700 | 25 | 14 | 56.0000 | |
| jlack-gatk | INDEL | D6_15 | map_l100_m1_e0 | * | 92.8030 | 94.9612 | 90.7407 | 88.2660 | 245 | 13 | 245 | 25 | 3 | 12.0000 | |
| jlack-gatk | INDEL | D6_15 | map_l100_m2_e0 | * | 92.7644 | 94.6970 | 90.9091 | 88.8709 | 250 | 14 | 250 | 25 | 3 | 12.0000 | |
| jlack-gatk | INDEL | I16_PLUS | HG002compoundhet | het | 61.9313 | 91.4894 | 46.8085 | 90.8382 | 43 | 4 | 22 | 25 | 17 | 68.0000 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 93.7644 | 99.0244 | 89.0351 | 90.6863 | 203 | 2 | 203 | 25 | 23 | 92.0000 | |
| hfeng-pmm1 | SNP | ti | map_l250_m0_e0 | * | 98.2865 | 98.3942 | 98.1792 | 92.9532 | 1348 | 22 | 1348 | 25 | 5 | 20.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.8615 | 94.2539 | 99.6175 | 50.6158 | 6512 | 397 | 6511 | 25 | 20 | 80.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.6812 | 95.9164 | 99.5121 | 62.7887 | 5097 | 217 | 5099 | 25 | 19 | 76.0000 | |
| hfeng-pmm3 | SNP | * | HG002complexvar | homalt | 99.9822 | 99.9730 | 99.9913 | 19.9554 | 288496 | 78 | 288478 | 25 | 24 | 96.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.4894 | 96.4286 | 98.5739 | 66.0205 | 1728 | 64 | 1728 | 25 | 17 | 68.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 94.7203 | 94.2529 | 95.1923 | 81.7287 | 574 | 35 | 495 | 25 | 17 | 68.0000 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 93.7644 | 99.0244 | 89.0351 | 90.6863 | 203 | 2 | 203 | 25 | 23 | 92.0000 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.6270 | 99.8753 | 99.3798 | 50.2161 | 4006 | 5 | 4006 | 25 | 1 | 4.0000 | |
| jli-custom | INDEL | * | map_l125_m2_e0 | * | 98.5850 | 98.3151 | 98.8564 | 86.6789 | 2159 | 37 | 2161 | 25 | 8 | 32.0000 | |
| jli-custom | INDEL | * | map_l125_m2_e1 | * | 98.5806 | 98.2921 | 98.8708 | 86.7884 | 2187 | 38 | 2189 | 25 | 8 | 32.0000 | |
| hfeng-pmm2 | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.8844 | 98.3152 | 99.4603 | 36.9967 | 4610 | 79 | 4607 | 25 | 0 | 0.0000 | |
| hfeng-pmm2 | SNP | tv | map_l250_m0_e0 | * | 97.4026 | 98.0392 | 96.7742 | 93.4737 | 750 | 15 | 750 | 25 | 4 | 16.0000 | |
| hfeng-pmm3 | INDEL | * | map_l150_m1_e0 | * | 98.2484 | 98.3558 | 98.1413 | 87.8949 | 1316 | 22 | 1320 | 25 | 6 | 24.0000 | |
| hfeng-pmm3 | INDEL | * | map_l150_m2_e0 | * | 98.2631 | 98.2955 | 98.2307 | 88.7365 | 1384 | 24 | 1388 | 25 | 6 | 24.0000 | |
| hfeng-pmm3 | INDEL | * | map_l150_m2_e1 | * | 98.1943 | 98.1237 | 98.2651 | 88.7746 | 1412 | 27 | 1416 | 25 | 6 | 24.0000 | |