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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
70951-71000 / 86044 show all | |||||||||||||||
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 79.6904 | 73.7069 | 86.7312 | 40.6237 | 342 | 122 | 1255 | 192 | 190 | 98.9583 | |
| gduggal-bwavard | INDEL | * | map_l100_m1_e0 | hetalt | 0.0000 | 1.6129 | 0.0000 | 0.0000 | 2 | 122 | 0 | 0 | 0 | ||
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 87.7617 | 87.8607 | 87.6630 | 63.7323 | 883 | 122 | 874 | 123 | 103 | 83.7398 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 15.7742 | 14.0845 | 17.9245 | 45.0777 | 20 | 122 | 19 | 87 | 86 | 98.8506 | |
| eyeh-varpipe | SNP | tv | * | homalt | 99.9630 | 99.9676 | 99.9583 | 19.9401 | 377001 | 122 | 371165 | 155 | 57 | 36.7742 | |
| gduggal-bwafb | SNP | * | map_l150_m2_e1 | homalt | 99.4055 | 98.9685 | 99.8465 | 74.9037 | 11705 | 122 | 11705 | 18 | 11 | 61.1111 | |
| gduggal-bwavard | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 91.9826 | 95.9549 | 88.3261 | 82.4603 | 2894 | 122 | 2860 | 378 | 43 | 11.3757 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 86.8534 | 76.7619 | 100.0000 | 76.0472 | 403 | 122 | 406 | 0 | 0 | ||
| jlack-gatk | INDEL | D6_15 | * | het | 96.7124 | 98.9476 | 94.5760 | 63.3561 | 11470 | 122 | 11421 | 655 | 345 | 52.6718 | |
| hfeng-pmm2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 90.5375 | 83.0556 | 99.5008 | 87.1910 | 598 | 122 | 598 | 3 | 0 | 0.0000 | |
| hfeng-pmm3 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.1684 | 91.4205 | 99.2366 | 87.1594 | 1300 | 122 | 1300 | 10 | 3 | 30.0000 | |
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 94.0613 | 88.9493 | 99.7967 | 86.1115 | 982 | 122 | 982 | 2 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | * | hetalt | 96.6724 | 93.6886 | 99.8525 | 38.6610 | 1811 | 122 | 2031 | 3 | 3 | 100.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | HG002compoundhet | hetalt | 96.7327 | 93.6722 | 100.0000 | 26.4571 | 1806 | 122 | 1918 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.6688 | 93.6820 | 99.8523 | 38.6219 | 1809 | 122 | 2028 | 3 | 3 | 100.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.6688 | 93.6820 | 99.8523 | 38.6219 | 1809 | 122 | 2028 | 3 | 3 | 100.0000 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 50.0000 | 55.5556 | 0 | 122 | 2 | 2 | 2 | 100.0000 | |
| gduggal-snapvard | SNP | ti | func_cds | * | 99.4321 | 99.1151 | 99.7511 | 27.3375 | 13665 | 122 | 13628 | 34 | 14 | 41.1765 | |
| gduggal-snapvard | SNP | ti | map_l250_m1_e0 | het | 81.6091 | 95.8895 | 71.0309 | 92.1854 | 2846 | 122 | 2832 | 1155 | 61 | 5.2814 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 57.3256 | 86.6375 | 42.8337 | 90.6835 | 791 | 122 | 783 | 1045 | 45 | 4.3062 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 86.1165 | 76.7619 | 98.0676 | 77.3770 | 403 | 122 | 406 | 8 | 2 | 25.0000 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 42.3077 | 35.1064 | 53.2258 | 74.8988 | 66 | 122 | 66 | 58 | 49 | 84.4828 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 85.6376 | 97.1213 | 76.5824 | 85.4250 | 4116 | 122 | 4150 | 1269 | 11 | 0.8668 | |
| gduggal-snapplat | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 122 | 0 | 0 | 0 | |||
| gduggal-snapplat | INDEL | I6_15 | segdup | * | 42.6472 | 30.2857 | 72.0588 | 94.2761 | 53 | 122 | 49 | 19 | 2 | 10.5263 | |
| gduggal-snapfb | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 122 | 0 | 0 | 0 | |||
| gduggal-snapfb | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 53.0788 | 81.5710 | 39.3382 | 71.0021 | 540 | 122 | 642 | 990 | 87 | 8.7879 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 42.8058 | 31.8436 | 65.2778 | 41.9355 | 57 | 122 | 47 | 25 | 3 | 12.0000 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 75.5534 | 70.8134 | 80.9735 | 44.8780 | 296 | 122 | 183 | 43 | 43 | 100.0000 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 3.1746 | 1.6129 | 100.0000 | 99.9994 | 2 | 122 | 1 | 0 | 0 | ||
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.3899 | 98.2619 | 98.5182 | 61.1046 | 6897 | 122 | 6848 | 103 | 31 | 30.0971 | |
| ghariani-varprowl | INDEL | * | map_l125_m2_e0 | * | 91.8919 | 94.4444 | 89.4737 | 94.0645 | 2074 | 122 | 2074 | 244 | 79 | 32.3770 | |
| ckim-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.4384 | 96.9802 | 93.9449 | 79.5374 | 3918 | 122 | 3615 | 233 | 194 | 83.2618 | |
| ckim-gatk | INDEL | D6_15 | HG002complexvar | * | 98.1151 | 97.6990 | 98.5347 | 58.5306 | 5180 | 122 | 5178 | 77 | 70 | 90.9091 | |
| cchapple-custom | INDEL | D16_PLUS | HG002complexvar | * | 94.5754 | 92.5746 | 96.6646 | 59.3502 | 1521 | 122 | 1536 | 53 | 45 | 84.9057 | |
| cchapple-custom | SNP | tv | map_l250_m2_e1 | * | 95.6819 | 95.8162 | 95.5479 | 90.3656 | 2794 | 122 | 2790 | 130 | 24 | 18.4615 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.0685 | 99.1132 | 99.0238 | 69.1438 | 13635 | 122 | 13593 | 134 | 112 | 83.5821 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.0685 | 99.1132 | 99.0238 | 69.1438 | 13635 | 122 | 13593 | 134 | 112 | 83.5821 | |
| ckim-isaac | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 95.9870 | 92.7725 | 99.4322 | 50.3135 | 1566 | 122 | 1576 | 9 | 4 | 44.4444 | |
| dgrover-gatk | SNP | ti | map_l125_m0_e0 | * | 99.0401 | 99.0440 | 99.0361 | 76.9678 | 12640 | 122 | 12638 | 123 | 30 | 24.3902 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.0420 | 87.8244 | 94.5043 | 58.5344 | 880 | 122 | 877 | 51 | 34 | 66.6667 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.4855 | 98.1673 | 98.8057 | 79.9095 | 6535 | 122 | 6536 | 79 | 33 | 41.7722 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.0651 | 97.0076 | 99.1459 | 33.5614 | 3955 | 122 | 3947 | 34 | 24 | 70.5882 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 90.9226 | 92.4365 | 89.4575 | 60.7169 | 1491 | 122 | 1451 | 171 | 123 | 71.9298 | |
| bgallagher-sentieon | SNP | ti | map_l125_m2_e0 | het | 99.0858 | 99.3537 | 98.8194 | 75.6140 | 18754 | 122 | 18750 | 224 | 33 | 14.7321 | |
| bgallagher-sentieon | SNP | ti | map_l125_m2_e1 | het | 99.0933 | 99.3608 | 98.8273 | 75.6520 | 18965 | 122 | 18961 | 225 | 33 | 14.6667 | |
| bgallagher-sentieon | INDEL | D16_PLUS | * | hetalt | 96.4203 | 93.6886 | 99.3161 | 38.7676 | 1811 | 122 | 2033 | 14 | 14 | 100.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | HG002compoundhet | * | 95.0525 | 94.7886 | 95.3179 | 35.3692 | 2219 | 122 | 2219 | 109 | 106 | 97.2477 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.4163 | 93.6820 | 99.3151 | 38.7290 | 1809 | 122 | 2030 | 14 | 14 | 100.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.3882 | 96.1994 | 96.5777 | 62.9694 | 3088 | 122 | 3076 | 109 | 106 | 97.2477 | |