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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
24951-25000 / 86044 show all | |||||||||||||||
| ciseli-custom | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 82.0846 | 86.7638 | 77.8844 | 75.9358 | 41880 | 6389 | 42785 | 12149 | 5113 | 42.0858 | |
| gduggal-snapvard | SNP | ti | HG002compoundhet | * | 79.9822 | 79.9565 | 80.0079 | 49.1293 | 13974 | 3503 | 14163 | 3539 | 1489 | 42.0740 | |
| ltrigg-rtg2 | SNP | * | HG002complexvar | * | 99.8684 | 99.7896 | 99.9473 | 18.8678 | 752797 | 1587 | 752943 | 397 | 167 | 42.0655 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 88.2507 | 80.5274 | 97.6127 | 83.3538 | 4367 | 1056 | 4375 | 107 | 45 | 42.0561 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 88.2507 | 80.5274 | 97.6127 | 83.3538 | 4367 | 1056 | 4375 | 107 | 45 | 42.0561 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 67.3062 | 52.6056 | 93.4092 | 74.8938 | 3200 | 2883 | 3203 | 226 | 95 | 42.0354 | |
| gduggal-bwavard | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 94.8865 | 95.8225 | 93.9686 | 74.8872 | 2959 | 129 | 2929 | 188 | 79 | 42.0213 | |
| gduggal-bwafb | INDEL | * | map_siren | * | 96.8227 | 95.3306 | 98.3622 | 80.8381 | 7064 | 346 | 7147 | 119 | 50 | 42.0168 | |
| egarrison-hhga | SNP | * | map_l100_m2_e1 | * | 99.5464 | 99.2547 | 99.8398 | 64.7282 | 74180 | 557 | 74181 | 119 | 50 | 42.0168 | |
| gduggal-snapplat | SNP | tv | map_l250_m2_e0 | * | 86.3687 | 80.4650 | 93.2074 | 94.2777 | 2319 | 563 | 2319 | 169 | 71 | 42.0118 | |
| gduggal-snapvard | INDEL | I1_5 | map_l125_m2_e1 | * | 90.4900 | 94.5977 | 86.7243 | 88.6844 | 823 | 47 | 1104 | 169 | 71 | 42.0118 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 96.3287 | 96.4131 | 96.2444 | 58.5642 | 3790 | 141 | 3844 | 150 | 63 | 42.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5699 | 97.9439 | 99.2039 | 75.0813 | 6288 | 132 | 6231 | 50 | 21 | 42.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5699 | 97.9439 | 99.2039 | 75.0813 | 6288 | 132 | 6231 | 50 | 21 | 42.0000 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.3301 | 95.6145 | 99.1085 | 62.8544 | 62485 | 2866 | 62808 | 565 | 237 | 41.9469 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.3301 | 95.6145 | 99.1085 | 62.8544 | 62485 | 2866 | 62808 | 565 | 237 | 41.9469 | |
| hfeng-pmm3 | SNP | * | map_l125_m1_e0 | homalt | 99.7929 | 99.7693 | 99.8165 | 66.4802 | 16866 | 39 | 16866 | 31 | 13 | 41.9355 | |
| hfeng-pmm3 | SNP | * | map_l125_m2_e0 | homalt | 99.7985 | 99.7755 | 99.8215 | 68.9465 | 17336 | 39 | 17336 | 31 | 13 | 41.9355 | |
| hfeng-pmm3 | SNP | * | map_l125_m2_e1 | homalt | 99.8003 | 99.7775 | 99.8231 | 68.9786 | 17493 | 39 | 17493 | 31 | 13 | 41.9355 | |
| gduggal-snapfb | INDEL | I1_5 | map_siren | homalt | 98.0751 | 98.6799 | 97.4776 | 83.6569 | 1196 | 16 | 1198 | 31 | 13 | 41.9355 | |
| gduggal-snapplat | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 94.2325 | 90.6751 | 98.0805 | 79.1908 | 1585 | 163 | 1584 | 31 | 13 | 41.9355 | |
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.2514 | 97.6938 | 98.8154 | 81.5275 | 2584 | 61 | 2586 | 31 | 13 | 41.9355 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 81.6123 | 69.5280 | 98.7810 | 81.8253 | 2519 | 1104 | 2512 | 31 | 13 | 41.9355 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.3827 | 95.6865 | 97.0892 | 81.8383 | 2063 | 93 | 2068 | 62 | 26 | 41.9355 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 91.8999 | 88.1227 | 96.0154 | 66.8254 | 4511 | 608 | 4482 | 186 | 78 | 41.9355 | |
| ndellapenna-hhga | SNP | tv | map_l150_m1_e0 | het | 98.5385 | 97.5525 | 99.5446 | 72.4747 | 6776 | 170 | 6776 | 31 | 13 | 41.9355 | |
| gduggal-bwavard | INDEL | * | map_l100_m2_e1 | * | 90.3682 | 92.8381 | 88.0262 | 88.0620 | 3487 | 269 | 3492 | 475 | 199 | 41.8947 | |
| gduggal-bwaplat | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 68.9830 | 54.5121 | 93.9135 | 78.7818 | 5491 | 4582 | 5493 | 356 | 149 | 41.8539 | |
| rpoplin-dv42 | SNP | tv | map_l100_m1_e0 | het | 99.1180 | 99.1503 | 99.0858 | 64.8238 | 15286 | 131 | 15282 | 141 | 59 | 41.8440 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 88.8820 | 96.0769 | 82.6897 | 71.8992 | 1200 | 49 | 1199 | 251 | 105 | 41.8327 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 88.8820 | 96.0769 | 82.6897 | 71.8992 | 1200 | 49 | 1199 | 251 | 105 | 41.8327 | |
| gduggal-snapvard | INDEL | I1_5 | map_l125_m2_e1 | het | 88.5797 | 98.8189 | 80.2632 | 90.8843 | 502 | 6 | 671 | 165 | 69 | 41.8182 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 91.0653 | 90.2147 | 91.9320 | 48.7934 | 10713 | 1162 | 10768 | 945 | 395 | 41.7989 | |
| eyeh-varpipe | SNP | ti | * | homalt | 99.9720 | 99.9710 | 99.9731 | 16.3629 | 802806 | 233 | 790297 | 213 | 89 | 41.7840 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.4855 | 98.1673 | 98.8057 | 79.9095 | 6535 | 122 | 6536 | 79 | 33 | 41.7722 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.5003 | 98.6256 | 94.4647 | 86.9451 | 1794 | 25 | 1553 | 91 | 38 | 41.7582 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.5003 | 98.6256 | 94.4647 | 86.9451 | 1794 | 25 | 1553 | 91 | 38 | 41.7582 | |
| anovak-vg | INDEL | D1_5 | map_l125_m0_e0 | * | 80.9550 | 82.0565 | 79.8828 | 90.2159 | 407 | 89 | 409 | 103 | 43 | 41.7476 | |
| gduggal-bwavard | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 95.4182 | 95.3879 | 95.4484 | 71.2860 | 9245 | 447 | 9143 | 436 | 182 | 41.7431 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 84.3637 | 87.9716 | 81.0401 | 48.2088 | 3218 | 440 | 3257 | 762 | 318 | 41.7323 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 88.5191 | 81.9668 | 96.2101 | 86.7350 | 3209 | 706 | 3224 | 127 | 53 | 41.7323 | |
| gduggal-snapplat | SNP | tv | map_l250_m2_e0 | het | 85.9616 | 81.9072 | 90.4382 | 95.1114 | 1589 | 351 | 1589 | 168 | 70 | 41.6667 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 64.9606 | 65.2174 | 64.7059 | 72.5806 | 45 | 24 | 22 | 12 | 5 | 41.6667 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 97.6779 | 97.8306 | 97.5258 | 65.0198 | 947 | 21 | 946 | 24 | 10 | 41.6667 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 92.6592 | 93.9050 | 91.4460 | 61.1858 | 909 | 59 | 898 | 84 | 35 | 41.6667 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4859 | 99.1534 | 99.8206 | 46.3856 | 6676 | 57 | 6678 | 12 | 5 | 41.6667 | |
| hfeng-pmm1 | INDEL | * | map_l100_m1_e0 | homalt | 99.1863 | 99.3480 | 99.0252 | 81.5332 | 1219 | 8 | 1219 | 12 | 5 | 41.6667 | |
| hfeng-pmm1 | INDEL | * | map_l100_m2_e0 | homalt | 99.2082 | 99.3656 | 99.0514 | 82.7233 | 1253 | 8 | 1253 | 12 | 5 | 41.6667 | |
| hfeng-pmm1 | INDEL | * | map_l100_m2_e1 | homalt | 99.2206 | 99.3755 | 99.0661 | 82.8094 | 1273 | 8 | 1273 | 12 | 5 | 41.6667 | |
| gduggal-snapvard | INDEL | I1_5 | map_l125_m2_e0 | * | 90.3981 | 94.5158 | 86.6242 | 88.6067 | 810 | 47 | 1088 | 168 | 70 | 41.6667 | |