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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
62201-62250 / 86044 show all | |||||||||||||||
| jlack-gatk | INDEL | I6_15 | * | hetalt | 94.0319 | 88.8083 | 99.9084 | 39.1561 | 7594 | 957 | 7635 | 7 | 6 | 85.7143 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.9121 | 94.0092 | 100.0000 | 39.1549 | 204 | 13 | 216 | 0 | 0 | ||
| hfeng-pmm3 | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.4191 | 98.9769 | 99.8654 | 39.1534 | 6675 | 69 | 6675 | 9 | 3 | 33.3333 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 75.9388 | 61.7232 | 98.6618 | 39.1505 | 8661 | 5371 | 8184 | 111 | 101 | 90.9910 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.2055 | 93.3713 | 99.2172 | 39.1486 | 1803 | 128 | 2028 | 16 | 16 | 100.0000 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.2055 | 93.3713 | 99.2172 | 39.1486 | 1803 | 128 | 2028 | 16 | 16 | 100.0000 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 33.8729 | 24.3264 | 55.7519 | 39.1474 | 948 | 2949 | 1735 | 1377 | 1147 | 83.2970 | |
| qzeng-custom | SNP | ti | HG002complexvar | hetalt | 97.0149 | 94.2029 | 100.0000 | 39.1447 | 195 | 12 | 185 | 0 | 0 | ||
| raldana-dualsentieon | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2264 | 98.9027 | 99.5522 | 39.1407 | 6670 | 74 | 6670 | 30 | 1 | 3.3333 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 95.7416 | 95.5607 | 95.9231 | 39.1360 | 4542 | 211 | 4541 | 193 | 74 | 38.3420 | |
| hfeng-pmm1 | SNP | * | HG002complexvar | hetalt | 99.6764 | 99.3548 | 100.0000 | 39.1304 | 308 | 2 | 308 | 0 | 0 | ||
| hfeng-pmm1 | SNP | tv | HG002complexvar | hetalt | 99.6764 | 99.3548 | 100.0000 | 39.1304 | 308 | 2 | 308 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I6_15 | func_cds | homalt | 89.6552 | 86.6667 | 92.8571 | 39.1304 | 13 | 2 | 13 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | * | hetalt | 96.6998 | 93.7403 | 99.8523 | 39.1187 | 1812 | 121 | 2028 | 3 | 3 | 100.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 94.9153 | 90.3226 | 100.0000 | 39.1176 | 196 | 21 | 207 | 0 | 0 | ||
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.0394 | 97.9699 | 98.1089 | 39.1064 | 1303 | 27 | 1297 | 25 | 25 | 100.0000 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.9784 | 98.5004 | 99.4611 | 39.0941 | 24172 | 368 | 24179 | 131 | 123 | 93.8931 | |
| dgrover-gatk | INDEL | D16_PLUS | * | hetalt | 96.8869 | 94.5680 | 99.3224 | 39.0920 | 1828 | 105 | 2052 | 14 | 14 | 100.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.6963 | 93.7338 | 99.8521 | 39.0808 | 1810 | 121 | 2025 | 3 | 3 | 100.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.6963 | 93.7338 | 99.8521 | 39.0808 | 1810 | 121 | 2025 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | SNP | tv | func_cds | * | 99.2038 | 99.7941 | 98.6205 | 39.0741 | 4362 | 9 | 4361 | 61 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 87.3660 | 78.4928 | 98.5011 | 39.0737 | 927 | 254 | 920 | 14 | 13 | 92.8571 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 38.1138 | 46.0000 | 32.5359 | 39.0671 | 23 | 27 | 68 | 141 | 121 | 85.8156 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 79.6945 | 66.8919 | 98.5577 | 39.0625 | 99 | 49 | 615 | 9 | 9 | 100.0000 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 40.8457 | 34.5247 | 50.0000 | 39.0585 | 454 | 861 | 479 | 479 | 439 | 91.6493 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.1564 | 94.4700 | 100.0000 | 39.0547 | 205 | 12 | 245 | 0 | 0 | ||
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 78.0403 | 92.7260 | 67.3704 | 39.0451 | 9650 | 757 | 18923 | 9165 | 8275 | 90.2891 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.0403 | 91.4014 | 98.9810 | 39.0442 | 2498 | 235 | 6994 | 72 | 57 | 79.1667 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 91.9318 | 98.4353 | 86.2344 | 39.0430 | 692 | 11 | 758 | 121 | 116 | 95.8678 | |
| ciseli-custom | INDEL | D6_15 | HG002compoundhet | * | 6.6832 | 5.5814 | 8.3271 | 39.0416 | 504 | 8526 | 554 | 6099 | 5283 | 86.6208 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 83.0167 | 98.2183 | 71.8900 | 39.0410 | 6560 | 119 | 6900 | 2698 | 2648 | 98.1468 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.4716 | 97.2738 | 99.6993 | 39.0402 | 23871 | 669 | 23873 | 72 | 65 | 90.2778 | |
| asubramanian-gatk | SNP | tv | HG002complexvar | hetalt | 94.3522 | 91.6129 | 97.2603 | 39.0397 | 284 | 26 | 284 | 8 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.9108 | 94.6142 | 99.3217 | 39.0251 | 1827 | 104 | 2050 | 14 | 14 | 100.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.9108 | 94.6142 | 99.3217 | 39.0251 | 1827 | 104 | 2050 | 14 | 14 | 100.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.3868 | 99.5904 | 99.1841 | 39.0236 | 1945 | 8 | 1945 | 16 | 16 | 100.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 97.1896 | 94.7427 | 99.7662 | 39.0209 | 2541 | 141 | 2560 | 6 | 6 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | * | hetalt | 96.4031 | 93.0885 | 99.9625 | 39.0201 | 7960 | 591 | 8000 | 3 | 3 | 100.0000 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 85.5068 | 76.3231 | 97.2028 | 39.0192 | 274 | 85 | 278 | 8 | 8 | 100.0000 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 59.9042 | 65.3860 | 55.2704 | 39.0162 | 1787 | 946 | 3015 | 2440 | 1867 | 76.5164 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 97.2092 | 94.7800 | 99.7663 | 39.0116 | 2542 | 140 | 2561 | 6 | 6 | 100.0000 | |
| raldana-dualsentieon | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 91.8485 | 84.9895 | 99.9117 | 39.0086 | 3250 | 574 | 3393 | 3 | 3 | 100.0000 | |
| cchapple-custom | INDEL | I1_5 | func_cds | het | 98.3329 | 98.3051 | 98.3607 | 39.0000 | 58 | 1 | 60 | 1 | 0 | 0.0000 | |
| eyeh-varpipe | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.2187 | 99.8597 | 96.6309 | 38.9931 | 2135 | 3 | 1979 | 69 | 6 | 8.6957 | |
| gduggal-bwavard | SNP | ti | tech_badpromoters | homalt | 93.5065 | 87.8049 | 100.0000 | 38.9831 | 36 | 5 | 36 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.4672 | 97.2859 | 99.6775 | 38.9821 | 20037 | 559 | 20088 | 65 | 55 | 84.6154 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.1564 | 96.8697 | 99.4778 | 38.9804 | 1145 | 37 | 1143 | 6 | 6 | 100.0000 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 52.8467 | 36.1380 | 98.2938 | 38.9792 | 1456 | 2573 | 2362 | 41 | 37 | 90.2439 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 94.4844 | 97.2451 | 91.8762 | 38.9766 | 6495 | 184 | 6322 | 559 | 498 | 89.0877 | |
| rpoplin-dv42 | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.8707 | 99.8790 | 99.8625 | 38.9762 | 18161 | 22 | 18154 | 25 | 8 | 32.0000 | |