PrecisionFDA
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
52801-52850 / 86044 show all | |||||||||||||||
| cchapple-custom | INDEL | I1_5 | map_l250_m2_e1 | het | 91.4729 | 89.3939 | 93.6508 | 96.8117 | 59 | 7 | 59 | 4 | 0 | 0.0000 | |
| cchapple-custom | INDEL | I1_5 | segdup | het | 99.1750 | 98.6989 | 99.6558 | 95.3303 | 531 | 7 | 579 | 2 | 0 | 0.0000 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 97.9827 | 96.0452 | 100.0000 | 69.1415 | 170 | 7 | 266 | 0 | 0 | ||
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.6597 | 99.8868 | 99.4337 | 56.4666 | 6177 | 7 | 6145 | 35 | 2 | 5.7143 | |
| cchapple-custom | SNP | ti | func_cds | het | 99.7946 | 99.9177 | 99.6718 | 27.6397 | 8497 | 7 | 8504 | 28 | 1 | 3.5714 | |
| cchapple-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.1386 | 98.5075 | 99.7778 | 71.4829 | 462 | 7 | 449 | 1 | 1 | 100.0000 | |
| cchapple-custom | SNP | tv | lowcmp_SimpleRepeat_diTR_51to200 | * | 79.1667 | 73.0769 | 86.3636 | 95.4825 | 19 | 7 | 19 | 3 | 0 | 0.0000 | |
| cchapple-custom | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7323 | 99.4661 | 100.0000 | 30.4021 | 1304 | 7 | 1298 | 0 | 0 | ||
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_gt200bp_gt95identity_merged | * | 60.6061 | 58.8235 | 62.5000 | 99.5311 | 10 | 7 | 10 | 6 | 3 | 50.0000 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.7270 | 98.3908 | 99.0654 | 70.1742 | 428 | 7 | 424 | 4 | 3 | 75.0000 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9214 | 99.9312 | 99.9116 | 54.3329 | 10171 | 7 | 10167 | 9 | 9 | 100.0000 | |
| ckim-dragen | INDEL | D1_5 | map_l125_m1_e0 | homalt | 98.7005 | 97.9943 | 99.4169 | 85.1515 | 342 | 7 | 341 | 2 | 2 | 100.0000 | |
| ckim-dragen | INDEL | D1_5 | map_l125_m2_e0 | homalt | 98.7544 | 98.0769 | 99.4413 | 85.9828 | 357 | 7 | 356 | 2 | 2 | 100.0000 | |
| ckim-dragen | INDEL | D1_5 | map_l125_m2_e1 | homalt | 98.7814 | 98.1183 | 99.4536 | 85.9716 | 365 | 7 | 364 | 2 | 2 | 100.0000 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.1348 | 99.7788 | 90.9039 | 60.3967 | 3158 | 7 | 3158 | 316 | 314 | 99.3671 | |
| ckim-dragen | INDEL | D6_15 | map_l100_m2_e1 | hetalt | 94.9640 | 90.4110 | 100.0000 | 70.9251 | 66 | 7 | 66 | 0 | 0 | ||
| ckim-dragen | INDEL | D6_15 | map_l125_m2_e1 | * | 95.6522 | 94.5312 | 96.8000 | 91.8936 | 121 | 7 | 121 | 4 | 1 | 25.0000 | |
| ckim-dragen | INDEL | D6_15 | segdup | hetalt | 92.3077 | 85.7143 | 100.0000 | 89.7810 | 42 | 7 | 42 | 0 | 0 | ||
| ckim-dragen | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.1346 | 97.5265 | 92.8571 | 69.6281 | 276 | 7 | 273 | 21 | 21 | 100.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5956 | 99.4864 | 99.7050 | 76.9975 | 1356 | 7 | 1352 | 4 | 2 | 50.0000 | |
| ckim-dragen | INDEL | I1_5 | map_l150_m0_e0 | * | 96.5632 | 96.0227 | 97.1098 | 92.4056 | 169 | 7 | 168 | 5 | 2 | 40.0000 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.9156 | 98.4914 | 99.3435 | 72.0489 | 457 | 7 | 454 | 3 | 1 | 33.3333 | |
| ckim-dragen | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.8538 | 99.7443 | 99.9634 | 29.9590 | 2731 | 7 | 2732 | 1 | 1 | 100.0000 | |
| ckim-dragen | SNP | ti | HG002compoundhet | homalt | 99.8648 | 99.9053 | 99.8243 | 30.4352 | 7387 | 7 | 7388 | 13 | 13 | 100.0000 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.8509 | 99.8255 | 99.8764 | 47.5826 | 4004 | 7 | 4039 | 5 | 0 | 0.0000 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 99.1798 | 99.1774 | 99.1822 | 88.3012 | 844 | 7 | 849 | 7 | 7 | 100.0000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 85.1064 | 74.0741 | 100.0000 | 88.3721 | 20 | 7 | 5 | 0 | 0 | ||
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.1111 | 97.3783 | 98.8550 | 62.7841 | 260 | 7 | 259 | 3 | 1 | 33.3333 | |
| egarrison-hhga | INDEL | I1_5 | map_l100_m0_e0 | het | 98.1538 | 97.8528 | 98.4568 | 86.6831 | 319 | 7 | 319 | 5 | 1 | 20.0000 | |
| egarrison-hhga | INDEL | I1_5 | map_siren | homalt | 99.3814 | 99.4224 | 99.3405 | 78.4317 | 1205 | 7 | 1205 | 8 | 4 | 50.0000 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 93.9227 | 92.3913 | 95.5056 | 68.1004 | 85 | 7 | 85 | 4 | 3 | 75.0000 | |
| egarrison-hhga | SNP | * | * | hetalt | 99.1394 | 99.1963 | 99.0826 | 48.4024 | 864 | 7 | 864 | 8 | 8 | 100.0000 | |
| egarrison-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.6740 | 99.4939 | 99.8549 | 58.0900 | 1376 | 7 | 1376 | 2 | 1 | 50.0000 | |
| egarrison-hhga | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.8538 | 99.7443 | 99.9634 | 32.0149 | 2731 | 7 | 2732 | 1 | 0 | 0.0000 | |
| egarrison-hhga | SNP | ti | segdup | homalt | 99.8003 | 99.9067 | 99.6942 | 88.4424 | 7498 | 7 | 7498 | 23 | 23 | 100.0000 | |
| egarrison-hhga | SNP | tv | * | hetalt | 99.1394 | 99.1963 | 99.0826 | 48.4024 | 864 | 7 | 864 | 8 | 8 | 100.0000 | |
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.8929 | 99.1813 | 98.6063 | 58.3656 | 848 | 7 | 849 | 12 | 3 | 25.0000 | |
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7216 | 99.5139 | 99.9303 | 67.9123 | 1433 | 7 | 1433 | 1 | 0 | 0.0000 | |
| eyeh-varpipe | INDEL | * | map_l250_m1_e0 | het | 96.2782 | 96.3158 | 96.2406 | 94.6853 | 183 | 7 | 256 | 10 | 4 | 40.0000 | |
| eyeh-varpipe | INDEL | * | map_l250_m2_e0 | het | 96.4428 | 96.6667 | 96.2199 | 94.7821 | 203 | 7 | 280 | 11 | 5 | 45.4545 | |
| eyeh-varpipe | INDEL | * | map_l250_m2_e1 | het | 96.4506 | 96.6825 | 96.2199 | 94.9010 | 204 | 7 | 280 | 11 | 5 | 45.4545 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 95.1053 | 94.3548 | 95.8678 | 99.9213 | 117 | 7 | 116 | 5 | 1 | 20.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 93.5396 | 91.9540 | 95.1807 | 99.8985 | 80 | 7 | 79 | 4 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.2903 | 98.1771 | 96.4194 | 86.0507 | 377 | 7 | 377 | 14 | 2 | 14.2857 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.4903 | 97.8659 | 99.1228 | 38.1555 | 321 | 7 | 339 | 3 | 3 | 100.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | map_siren | * | 92.1664 | 95.1049 | 89.4040 | 94.7129 | 136 | 7 | 135 | 16 | 2 | 12.5000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.7153 | 99.8632 | 97.5936 | 51.6484 | 5110 | 7 | 5110 | 126 | 125 | 99.2063 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.3482 | 99.9034 | 98.7991 | 36.8548 | 7240 | 7 | 7240 | 88 | 87 | 98.8636 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.8773 | 99.8283 | 99.9264 | 44.0264 | 4070 | 7 | 4073 | 3 | 1 | 33.3333 | |
| dgrover-gatk | INDEL | D1_5 | map_l150_m1_e0 | het | 97.9436 | 98.5477 | 97.3469 | 90.2488 | 475 | 7 | 477 | 13 | 2 | 15.3846 | |