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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
68201-68250 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | D6_15 | map_l100_m2_e1 | het | 60.2597 | 44.4444 | 93.5484 | 90.0000 | 60 | 75 | 58 | 4 | 3 | 75.0000 | |
| ckim-vqsr | INDEL | * | map_l125_m1_e0 | * | 96.8785 | 96.4404 | 97.3206 | 91.1117 | 2032 | 75 | 2034 | 56 | 8 | 14.2857 | |
| ckim-vqsr | SNP | tv | segdup | het | 98.9929 | 98.5625 | 99.4272 | 95.9257 | 5211 | 76 | 5207 | 30 | 0 | 0.0000 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.2051 | 91.0693 | 95.4433 | 86.0265 | 775 | 76 | 775 | 37 | 12 | 32.4324 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 94.9121 | 91.0588 | 99.1060 | 39.4900 | 774 | 76 | 776 | 7 | 7 | 100.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 84.2971 | 80.2083 | 88.8252 | 77.8834 | 308 | 76 | 310 | 39 | 36 | 92.3077 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 93.3178 | 93.0147 | 93.6229 | 58.8750 | 1012 | 76 | 1013 | 69 | 50 | 72.4638 | |
| dgrover-gatk | SNP | ti | map_l125_m0_e0 | het | 98.8408 | 99.0802 | 98.6026 | 80.1354 | 8187 | 76 | 8185 | 116 | 25 | 21.5517 | |
| dgrover-gatk | SNP | ti | map_l250_m2_e1 | * | 98.6193 | 98.5028 | 98.7362 | 90.4249 | 5000 | 76 | 5000 | 64 | 18 | 28.1250 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 86.6705 | 87.5205 | 85.8369 | 72.0400 | 533 | 76 | 600 | 99 | 82 | 82.8283 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.3248 | 99.5674 | 99.0833 | 60.5130 | 17492 | 76 | 17510 | 162 | 12 | 7.4074 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 87.5000 | 79.0634 | 97.9522 | 47.2072 | 287 | 76 | 287 | 6 | 6 | 100.0000 | |
| ndellapenna-hhga | SNP | * | map_l125_m1_e0 | homalt | 99.7333 | 99.5504 | 99.9169 | 65.2026 | 16829 | 76 | 16829 | 14 | 13 | 92.8571 | |
| ndellapenna-hhga | SNP | * | map_l125_m2_e0 | homalt | 99.7405 | 99.5626 | 99.9191 | 67.9668 | 17299 | 76 | 17299 | 14 | 13 | 92.8571 | |
| ndellapenna-hhga | SNP | * | map_l125_m2_e1 | homalt | 99.7429 | 99.5665 | 99.9199 | 68.0072 | 17456 | 76 | 17456 | 14 | 13 | 92.8571 | |
| ndellapenna-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 92.8623 | 89.4444 | 96.5517 | 85.0649 | 644 | 76 | 644 | 23 | 10 | 43.4783 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.8398 | 91.3242 | 98.6369 | 70.6759 | 800 | 76 | 796 | 11 | 11 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.5007 | 97.2896 | 99.7423 | 37.1878 | 2728 | 76 | 2709 | 7 | 7 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.6736 | 97.5987 | 99.7724 | 40.0818 | 3089 | 76 | 3068 | 7 | 7 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.8029 | 98.7545 | 98.8513 | 71.4513 | 6026 | 76 | 6024 | 70 | 13 | 18.5714 | |
| ltrigg-rtg2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.2000 | 97.2028 | 99.2178 | 83.0336 | 2641 | 76 | 2537 | 20 | 1 | 5.0000 | |
| mlin-fermikit | INDEL | D1_5 | map_l150_m2_e1 | homalt | 70.9278 | 69.3548 | 72.5738 | 81.4699 | 172 | 76 | 172 | 65 | 60 | 92.3077 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 97.9660 | 97.1407 | 98.8054 | 65.3168 | 2582 | 76 | 2564 | 31 | 30 | 96.7742 | |
| mlin-fermikit | INDEL | I1_5 | map_l150_m0_e0 | het | 43.7956 | 28.3019 | 96.7742 | 87.6984 | 30 | 76 | 30 | 1 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 28.8288 | 17.3913 | 84.2105 | 81.9048 | 16 | 76 | 16 | 3 | 3 | 100.0000 | |
| mlin-fermikit | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 94.6799 | 92.3387 | 97.1429 | 70.2456 | 916 | 76 | 918 | 27 | 3 | 11.1111 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 83.1236 | 82.5688 | 83.6858 | 64.5989 | 360 | 76 | 1108 | 216 | 72 | 33.3333 | |
| qzeng-custom | INDEL | I1_5 | map_l150_m1_e0 | homalt | 75.7686 | 61.6162 | 98.3607 | 87.4486 | 122 | 76 | 180 | 3 | 2 | 66.6667 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.6754 | 93.6402 | 99.9140 | 32.5015 | 1119 | 76 | 1162 | 1 | 1 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | map_l100_m1_e0 | * | 97.7114 | 95.8874 | 99.6061 | 77.1094 | 1772 | 76 | 1770 | 7 | 2 | 28.5714 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.2631 | 94.2205 | 98.3962 | 48.3858 | 1239 | 76 | 1227 | 20 | 11 | 55.0000 | |
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.2014 | 99.6118 | 98.7944 | 67.9415 | 19503 | 76 | 19503 | 238 | 15 | 6.3025 | |
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.2014 | 99.6118 | 98.7944 | 67.9415 | 19503 | 76 | 19503 | 238 | 15 | 6.3025 | |
| jli-custom | SNP | tv | map_l150_m0_e0 | het | 98.0858 | 97.3268 | 98.8567 | 76.0708 | 2767 | 76 | 2767 | 32 | 7 | 21.8750 | |
| jmaeng-gatk | INDEL | * | map_l100_m2_e1 | * | 96.9607 | 97.9766 | 95.9656 | 89.2269 | 3680 | 76 | 3687 | 155 | 21 | 13.5484 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_siren | * | 98.3998 | 97.4709 | 99.3466 | 77.4486 | 2929 | 76 | 2889 | 19 | 3 | 15.7895 | |
| ltrigg-rtg2 | INDEL | * | map_l125_m2_e0 | * | 97.8771 | 96.5392 | 99.2527 | 82.4666 | 2120 | 76 | 2125 | 16 | 1 | 6.2500 | |
| jpowers-varprowl | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.7720 | 98.3536 | 99.1941 | 45.0969 | 4540 | 76 | 4554 | 37 | 1 | 2.7027 | |
| jpowers-varprowl | SNP | tv | map_l100_m0_e0 | homalt | 98.7169 | 98.0239 | 99.4198 | 69.7608 | 3770 | 76 | 3770 | 22 | 12 | 54.5455 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 97.2360 | 95.2999 | 99.2524 | 31.1832 | 1541 | 76 | 1726 | 13 | 13 | 100.0000 | |
| jli-custom | INDEL | D6_15 | HG002complexvar | hetalt | 94.3987 | 92.4975 | 96.3796 | 46.9642 | 937 | 76 | 985 | 37 | 36 | 97.2973 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.1703 | 98.2906 | 98.0503 | 64.7824 | 4370 | 76 | 4325 | 86 | 81 | 94.1860 | |
| cchapple-custom | INDEL | * | map_l125_m2_e1 | * | 95.8508 | 96.5843 | 95.1283 | 87.4762 | 2149 | 76 | 2187 | 112 | 24 | 21.4286 | |
| ciseli-custom | SNP | ti | func_cds | * | 98.7839 | 99.4488 | 98.1278 | 24.0438 | 13711 | 76 | 13680 | 261 | 31 | 11.8774 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.2722 | 96.5106 | 96.0350 | 77.8916 | 2102 | 76 | 1865 | 77 | 72 | 93.5065 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.7777 | 99.3930 | 98.1700 | 65.9733 | 12445 | 76 | 12285 | 229 | 215 | 93.8865 | |
| ckim-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.7942 | 99.6237 | 99.9652 | 56.3615 | 20123 | 76 | 20123 | 7 | 7 | 100.0000 | |
| ckim-gatk | SNP | ti | segdup | homalt | 99.4711 | 98.9873 | 99.9596 | 87.8310 | 7429 | 76 | 7429 | 3 | 3 | 100.0000 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 39.6972 | 43.7037 | 36.3636 | 62.9969 | 59 | 76 | 88 | 154 | 95 | 61.6883 | |
| ciseli-custom | INDEL | D1_5 | map_siren | hetalt | 0.0000 | 9.5238 | 0.0000 | 0.0000 | 8 | 76 | 0 | 0 | 0 | ||