PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
68101-68150 / 86044 show all | |||||||||||||||
| raldana-dualsentieon | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2264 | 98.9027 | 99.5522 | 39.1407 | 6670 | 74 | 6670 | 30 | 1 | 3.3333 | |
| dgrover-gatk | SNP | ti | map_l250_m1_e0 | * | 98.5022 | 98.3839 | 98.6208 | 89.9439 | 4505 | 74 | 4505 | 63 | 18 | 28.5714 | |
| dgrover-gatk | SNP | tv | map_l125_m0_e0 | * | 98.7276 | 98.8840 | 98.5716 | 78.3574 | 6557 | 74 | 6556 | 95 | 18 | 18.9474 | |
| ckim-vqsr | INDEL | D1_5 | map_siren | * | 98.3083 | 97.9031 | 98.7169 | 84.9543 | 3455 | 74 | 3462 | 45 | 6 | 13.3333 | |
| ckim-vqsr | INDEL | I16_PLUS | * | het | 98.1949 | 97.2774 | 99.1298 | 76.5400 | 2644 | 74 | 2620 | 23 | 10 | 43.4783 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 75.1496 | 77.5758 | 72.8707 | 49.6025 | 256 | 74 | 231 | 86 | 83 | 96.5116 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 96.5644 | 93.4397 | 99.9052 | 38.7696 | 1054 | 74 | 1054 | 1 | 1 | 100.0000 | |
| egarrison-hhga | INDEL | I1_5 | HG002compoundhet | het | 88.5536 | 91.2941 | 85.9729 | 82.4603 | 776 | 74 | 760 | 124 | 68 | 54.8387 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.0522 | 92.1444 | 96.0407 | 70.6215 | 868 | 74 | 849 | 35 | 23 | 65.7143 | |
| eyeh-varpipe | INDEL | * | map_l100_m0_e0 | * | 95.8235 | 95.2655 | 96.3881 | 94.1040 | 1489 | 74 | 2295 | 86 | 59 | 68.6047 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 72.9300 | 58.6592 | 96.3768 | 29.2308 | 105 | 74 | 133 | 5 | 4 | 80.0000 | |
| asubramanian-gatk | INDEL | I1_5 | map_l150_m1_e0 | het | 83.9718 | 75.2508 | 94.9791 | 93.8067 | 225 | 74 | 227 | 12 | 1 | 8.3333 | |
| astatham-gatk | SNP | tv | map_l250_m0_e0 | * | 93.9497 | 90.3268 | 97.8754 | 93.7472 | 691 | 74 | 691 | 15 | 5 | 33.3333 | |
| bgallagher-sentieon | SNP | * | map_l125_m2_e0 | homalt | 99.7291 | 99.5741 | 99.8845 | 66.0253 | 17301 | 74 | 17301 | 20 | 15 | 75.0000 | |
| bgallagher-sentieon | SNP | * | map_l125_m2_e1 | homalt | 99.7315 | 99.5779 | 99.8856 | 66.0476 | 17458 | 74 | 17458 | 20 | 15 | 75.0000 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.4480 | 96.6024 | 92.3875 | 77.6266 | 2104 | 74 | 1869 | 154 | 140 | 90.9091 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.6175 | 97.2128 | 98.0256 | 69.1545 | 2581 | 74 | 2532 | 51 | 39 | 76.4706 | |
| anovak-vg | INDEL | D6_15 | map_siren | hetalt | 0.0000 | 25.2525 | 0.0000 | 0.0000 | 25 | 74 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 35.0904 | 39.3443 | 31.6667 | 53.3679 | 48 | 74 | 57 | 123 | 84 | 68.2927 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 21.8978 | 16.8539 | 31.2500 | 56.7568 | 15 | 74 | 15 | 33 | 19 | 57.5758 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 84.2619 | 97.2450 | 74.3373 | 66.4617 | 2612 | 74 | 2636 | 910 | 12 | 1.3187 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 87.3183 | 98.1551 | 78.6365 | 59.0389 | 3937 | 74 | 3968 | 1078 | 33 | 3.0612 | |
| ckim-dragen | INDEL | * | HG002compoundhet | het | 96.6766 | 98.1925 | 95.2069 | 77.0708 | 4020 | 74 | 3774 | 190 | 179 | 94.2105 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.0870 | 99.1898 | 97.0085 | 80.9382 | 9059 | 74 | 9177 | 283 | 13 | 4.5936 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.0870 | 99.1898 | 97.0085 | 80.9382 | 9059 | 74 | 9177 | 283 | 13 | 4.5936 | |
| ckim-dragen | SNP | tv | map_l150_m0_e0 | * | 97.7354 | 98.2271 | 97.2486 | 82.2976 | 4100 | 74 | 4100 | 116 | 14 | 12.0690 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 88.6698 | 84.9899 | 92.6829 | 52.2246 | 419 | 74 | 418 | 33 | 30 | 90.9091 | |
| ciseli-custom | INDEL | D1_5 | map_l150_m0_e0 | het | 69.0619 | 63.3663 | 75.8824 | 95.3892 | 128 | 74 | 129 | 41 | 7 | 17.0732 | |
| ciseli-custom | INDEL | I1_5 | HG002compoundhet | homalt | 9.7782 | 77.5076 | 5.2183 | 58.7244 | 255 | 74 | 257 | 4668 | 4563 | 97.7506 | |
| cchapple-custom | SNP | ti | map_l250_m0_e0 | * | 95.9625 | 94.5985 | 97.3664 | 93.5930 | 1296 | 74 | 1294 | 35 | 13 | 37.1429 | |
| ciseli-custom | INDEL | * | func_cds | * | 84.1100 | 83.3708 | 84.8624 | 37.1758 | 371 | 74 | 370 | 66 | 30 | 45.4545 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 85.0816 | 98.0660 | 75.1335 | 65.0221 | 3803 | 75 | 3798 | 1257 | 30 | 2.3866 | |
| ciseli-custom | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 95.3321 | 99.2576 | 91.7054 | 59.1877 | 10027 | 75 | 10072 | 911 | 306 | 33.5895 | |
| ckim-dragen | SNP | * | map_l250_m0_e0 | * | 96.2167 | 96.4871 | 95.9478 | 93.2896 | 2060 | 75 | 2060 | 87 | 9 | 10.3448 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.0364 | 98.8318 | 99.2419 | 76.8770 | 6345 | 75 | 6284 | 48 | 25 | 52.0833 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.0364 | 98.8318 | 99.2419 | 76.8770 | 6345 | 75 | 6284 | 48 | 25 | 52.0833 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 53.1073 | 38.5246 | 85.4545 | 67.2619 | 47 | 75 | 47 | 8 | 7 | 87.5000 | |
| ckim-dragen | SNP | tv | map_l250_m2_e0 | * | 97.2121 | 97.3976 | 97.0273 | 89.9044 | 2807 | 75 | 2807 | 86 | 12 | 13.9535 | |
| ckim-dragen | SNP | tv | map_l250_m2_e1 | * | 97.2113 | 97.4280 | 96.9956 | 89.9894 | 2841 | 75 | 2841 | 88 | 12 | 13.6364 | |
| cchapple-custom | INDEL | * | map_l100_m1_e0 | het | 95.1984 | 96.6443 | 93.7950 | 84.7357 | 2160 | 75 | 2343 | 155 | 39 | 25.1613 | |
| cchapple-custom | INDEL | * | map_l125_m2_e0 | * | 95.8417 | 96.5847 | 95.1101 | 87.3742 | 2121 | 75 | 2159 | 111 | 23 | 20.7207 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 15.7303 | 8.5366 | 100.0000 | 84.6154 | 7 | 75 | 6 | 0 | 0 | ||
| gduggal-bwavard | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 85.6607 | 94.4974 | 78.3354 | 70.0293 | 1288 | 75 | 1280 | 354 | 318 | 89.8305 | |
| gduggal-bwavard | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.6353 | 95.7094 | 99.6403 | 58.7026 | 1673 | 75 | 1662 | 6 | 5 | 83.3333 | |
| gduggal-bwavard | SNP | ti | map_l250_m2_e1 | het | 88.2543 | 97.7266 | 80.4560 | 93.2754 | 3224 | 75 | 3211 | 780 | 22 | 2.8205 | |
| gduggal-snapfb | INDEL | * | map_l150_m2_e0 | het | 92.5169 | 91.7219 | 93.3259 | 87.8250 | 831 | 75 | 839 | 60 | 12 | 20.0000 | |
| gduggal-snapfb | INDEL | * | map_l150_m2_e1 | het | 92.5133 | 91.8831 | 93.1522 | 87.8339 | 849 | 75 | 857 | 63 | 12 | 19.0476 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 75.4613 | 91.1765 | 64.3669 | 39.3284 | 775 | 75 | 849 | 470 | 455 | 96.8085 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 62.0275 | 82.7982 | 49.5879 | 79.0744 | 361 | 75 | 361 | 367 | 274 | 74.6594 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 54.7486 | 39.5161 | 89.0909 | 97.3583 | 49 | 75 | 49 | 6 | 1 | 16.6667 | |