PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
36151-36200 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 90.7840 | 88.0000 | 93.7500 | 82.8571 | 44 | 6 | 45 | 3 | 1 | 33.3333 | |
| ltrigg-rtg2 | INDEL | D6_15 | map_l100_m1_e0 | het | 96.8254 | 96.8254 | 96.8254 | 82.8571 | 122 | 4 | 122 | 4 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | map_l125_m0_e0 | homalt | 100.0000 | 100.0000 | 100.0000 | 82.8571 | 6 | 0 | 6 | 0 | 0 | ||
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 69.2765 | 58.7912 | 84.3137 | 82.8571 | 321 | 225 | 430 | 80 | 10 | 12.5000 | |
| ndellapenna-hhga | INDEL | D6_15 | map_l100_m0_e0 | hetalt | 71.5596 | 68.4211 | 75.0000 | 82.8571 | 13 | 6 | 9 | 3 | 0 | 0.0000 | |
| gduggal-bwavard | INDEL | C1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 0.0000 | 0.0000 | 91.6667 | 82.8571 | 0 | 0 | 11 | 1 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | * | map_l125_m2_e1 | het | 67.5834 | 52.5568 | 94.6429 | 82.8559 | 740 | 668 | 742 | 42 | 17 | 40.4762 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l125_m2_e0 | * | 97.5042 | 95.7993 | 99.2710 | 82.8542 | 821 | 36 | 817 | 6 | 1 | 16.6667 | |
| jmaeng-gatk | SNP | * | map_l100_m2_e0 | het | 92.2826 | 87.7562 | 97.3014 | 82.8537 | 40718 | 5681 | 40707 | 1129 | 70 | 6.2002 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l100_m1_e0 | het | 98.3748 | 97.2973 | 99.4764 | 82.8507 | 756 | 21 | 760 | 4 | 0 | 0.0000 | |
| gduggal-bwafb | SNP | tv | map_l150_m0_e0 | het | 97.3551 | 97.7489 | 96.9644 | 82.8486 | 2779 | 64 | 2779 | 87 | 20 | 22.9885 | |
| gduggal-bwafb | INDEL | I6_15 | map_l100_m2_e0 | * | 86.3981 | 76.7241 | 98.8636 | 82.8460 | 89 | 27 | 87 | 1 | 1 | 100.0000 | |
| eyeh-varpipe | INDEL | D6_15 | map_l100_m2_e1 | het | 91.2869 | 91.1111 | 91.4634 | 82.8452 | 123 | 12 | 150 | 14 | 13 | 92.8571 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.0228 | 98.0645 | 100.0000 | 82.8442 | 152 | 3 | 152 | 0 | 0 | ||
| jmaeng-gatk | SNP | * | map_l100_m2_e1 | het | 92.3544 | 87.8737 | 97.3167 | 82.8441 | 41211 | 5687 | 41200 | 1136 | 70 | 6.1620 | |
| gduggal-bwafb | SNP | * | map_l150_m0_e0 | het | 97.7971 | 97.8463 | 97.7479 | 82.8433 | 7769 | 171 | 7769 | 179 | 54 | 30.1676 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.6596 | 99.0406 | 96.3166 | 82.8425 | 1342 | 13 | 1229 | 47 | 42 | 89.3617 | |
| gduggal-bwafb | SNP | ti | map_l150_m0_e0 | het | 98.0450 | 97.9007 | 98.1897 | 82.8404 | 4990 | 107 | 4990 | 92 | 34 | 36.9565 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 78.3715 | 64.4351 | 100.0000 | 82.8396 | 308 | 170 | 307 | 0 | 0 | ||
| mlin-fermikit | INDEL | I1_5 | map_l150_m0_e0 | homalt | 60.1770 | 50.7463 | 73.9130 | 82.8358 | 34 | 33 | 34 | 12 | 11 | 91.6667 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 13.6364 | 100.0000 | 7.3171 | 82.8308 | 15 | 0 | 15 | 190 | 8 | 4.2105 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 13.6364 | 100.0000 | 7.3171 | 82.8308 | 15 | 0 | 15 | 190 | 8 | 4.2105 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 13.6364 | 100.0000 | 7.3171 | 82.8308 | 15 | 0 | 15 | 190 | 8 | 4.2105 | |
| gduggal-snapfb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 13.6364 | 100.0000 | 7.3171 | 82.8308 | 15 | 0 | 15 | 190 | 8 | 4.2105 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.4371 | 99.6241 | 99.2509 | 82.8296 | 265 | 1 | 265 | 2 | 1 | 50.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.0619 | 99.2481 | 98.8764 | 82.8296 | 264 | 2 | 264 | 3 | 1 | 33.3333 | |
| jli-custom | INDEL | D1_5 | map_l100_m2_e1 | homalt | 99.3538 | 99.1935 | 99.5146 | 82.8286 | 615 | 5 | 615 | 3 | 3 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l150_m2_e0 | homalt | 98.5386 | 97.5207 | 99.5781 | 82.8261 | 236 | 6 | 236 | 1 | 1 | 100.0000 | |
| ckim-dragen | INDEL | D1_5 | map_siren | het | 97.9286 | 98.6825 | 97.1861 | 82.8253 | 2247 | 30 | 2245 | 65 | 4 | 6.1539 | |
| cchapple-custom | INDEL | * | map_l100_m0_e0 | homalt | 97.3258 | 96.4637 | 98.2036 | 82.8248 | 491 | 18 | 492 | 9 | 5 | 55.5556 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 81.3953 | 85.3659 | 77.7778 | 82.8244 | 35 | 6 | 35 | 10 | 5 | 50.0000 | |
| ghariani-varprowl | INDEL | * | map_l125_m1_e0 | homalt | 95.5851 | 93.1694 | 98.1295 | 82.8225 | 682 | 50 | 682 | 13 | 4 | 30.7692 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.8462 | 99.3358 | 96.4006 | 82.8203 | 1346 | 9 | 1232 | 46 | 29 | 63.0435 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 81.0304 | 79.3233 | 82.8125 | 82.8188 | 211 | 55 | 212 | 44 | 39 | 88.6364 | |
| gduggal-bwafb | INDEL | I6_15 | map_l100_m2_e1 | het | 82.6923 | 70.4918 | 100.0000 | 82.8179 | 43 | 18 | 50 | 0 | 0 | ||
| jlack-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 94.7368 | 100.0000 | 90.0000 | 82.8179 | 45 | 0 | 45 | 5 | 5 | 100.0000 | |
| ghariani-varprowl | INDEL | I16_PLUS | map_l100_m0_e0 | * | 72.7273 | 72.7273 | 72.7273 | 82.8125 | 8 | 3 | 8 | 3 | 2 | 66.6667 | |
| gduggal-snapvard | INDEL | I6_15 | map_l125_m2_e1 | homalt | 42.1053 | 26.6667 | 100.0000 | 82.8125 | 4 | 11 | 11 | 0 | 0 | ||
| gduggal-bwafb | INDEL | I1_5 | map_l100_m2_e0 | homalt | 99.3440 | 99.8117 | 98.8806 | 82.8095 | 530 | 1 | 530 | 6 | 4 | 66.6667 | |
| hfeng-pmm1 | INDEL | * | map_l100_m2_e1 | homalt | 99.2206 | 99.3755 | 99.0661 | 82.8094 | 1273 | 8 | 1273 | 12 | 5 | 41.6667 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l100_m2_e1 | * | 97.6961 | 97.3182 | 98.0769 | 82.8076 | 1887 | 52 | 1887 | 37 | 17 | 45.9459 | |
| raldana-dualsentieon | INDEL | I6_15 | map_l100_m1_e0 | het | 93.8053 | 89.8305 | 98.1481 | 82.8025 | 53 | 6 | 53 | 1 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | I6_15 | map_l125_m2_e1 | het | 80.3653 | 73.3333 | 88.8889 | 82.8025 | 22 | 8 | 24 | 3 | 2 | 66.6667 | |
| bgallagher-sentieon | INDEL | * | map_siren | * | 98.9031 | 99.0553 | 98.7513 | 82.8003 | 7340 | 70 | 7355 | 93 | 21 | 22.5806 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 52.1569 | 63.6364 | 44.1860 | 82.8000 | 42 | 24 | 38 | 48 | 24 | 50.0000 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 70.1987 | 60.9195 | 82.8125 | 82.7957 | 53 | 34 | 53 | 11 | 5 | 45.4545 | |
| asubramanian-gatk | INDEL | * | HG002compoundhet | homalt | 56.3380 | 99.1254 | 39.3519 | 82.7957 | 680 | 6 | 680 | 1048 | 928 | 88.5496 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 67.4944 | 52.3636 | 94.9227 | 82.7953 | 432 | 393 | 430 | 23 | 18 | 78.2609 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 67.4944 | 52.3636 | 94.9227 | 82.7953 | 432 | 393 | 430 | 23 | 18 | 78.2609 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 96.7778 | 99.6205 | 94.0928 | 82.7887 | 525 | 2 | 446 | 28 | 25 | 89.2857 | |