PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
9801-9850 / 86044 show all | |||||||||||||||
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 96.5901 | 96.7267 | 96.4539 | 49.3016 | 3546 | 120 | 3536 | 130 | 124 | 95.3846 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 95.7607 | 94.8001 | 96.7410 | 36.3288 | 3865 | 212 | 3859 | 130 | 125 | 96.1538 | |
| ndellapenna-hhga | SNP | ti | HG002compoundhet | homalt | 98.8916 | 99.5266 | 98.2646 | 31.2248 | 7359 | 35 | 7361 | 130 | 119 | 91.5385 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 86.1301 | 82.0915 | 90.5865 | 80.5712 | 1256 | 274 | 1251 | 130 | 79 | 60.7692 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 86.1301 | 82.0915 | 90.5865 | 80.5712 | 1256 | 274 | 1251 | 130 | 79 | 60.7692 | |
| jpowers-varprowl | INDEL | I1_5 | map_siren | het | 93.3720 | 94.3486 | 92.4154 | 83.6731 | 1586 | 95 | 1584 | 130 | 105 | 80.7692 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.5234 | 99.1268 | 97.9273 | 65.2174 | 6130 | 54 | 6142 | 130 | 33 | 25.3846 | |
| jmaeng-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.4801 | 99.6983 | 99.2628 | 67.4240 | 17515 | 53 | 17505 | 130 | 11 | 8.4615 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.8928 | 99.8104 | 96.0474 | 55.7633 | 3159 | 6 | 3159 | 130 | 127 | 97.6923 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.6606 | 99.5951 | 97.7434 | 43.6301 | 5658 | 23 | 5631 | 130 | 122 | 93.8462 | |
| ciseli-custom | INDEL | D1_5 | map_l150_m2_e1 | * | 74.1635 | 68.7661 | 80.4805 | 92.8937 | 535 | 243 | 536 | 130 | 62 | 47.6923 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 86.9392 | 99.7712 | 77.0318 | 47.2507 | 436 | 1 | 436 | 130 | 130 | 100.0000 | |
| ciseli-custom | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | het | 34.0392 | 86.1111 | 21.2121 | 74.2590 | 31 | 5 | 35 | 130 | 1 | 0.7692 | |
| ckim-dragen | INDEL | * | segdup | * | 97.1040 | 99.1784 | 95.1146 | 95.2650 | 2535 | 21 | 2531 | 130 | 14 | 10.7692 | |
| cchapple-custom | SNP | tv | map_l250_m2_e1 | * | 95.6819 | 95.8162 | 95.5479 | 90.3656 | 2794 | 122 | 2790 | 130 | 24 | 18.4615 | |
| cchapple-custom | SNP | tv | map_l250_m2_e1 | het | 94.5928 | 95.6743 | 93.5356 | 91.6445 | 1880 | 85 | 1881 | 130 | 24 | 18.4615 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 36.5732 | 34.6847 | 38.6792 | 60.6679 | 77 | 145 | 82 | 130 | 106 | 81.5385 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.4891 | 99.5708 | 99.4077 | 75.9619 | 21805 | 94 | 21817 | 130 | 120 | 92.3077 | |
| asubramanian-gatk | SNP | * | segdup | het | 98.0720 | 96.9394 | 99.2313 | 93.3046 | 16787 | 530 | 16781 | 130 | 4 | 3.0769 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.7603 | 96.7298 | 96.7909 | 69.6486 | 3934 | 133 | 3921 | 130 | 111 | 85.3846 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 33.1255 | 25.5937 | 46.9388 | 67.3333 | 97 | 282 | 115 | 130 | 84 | 64.6154 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.6674 | 99.8437 | 97.5186 | 50.9181 | 5109 | 8 | 5109 | 130 | 129 | 99.2308 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 42.4936 | 32.3575 | 61.8768 | 70.3993 | 210 | 439 | 211 | 130 | 89 | 68.4615 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.9583 | 99.2753 | 98.6433 | 48.3478 | 9452 | 69 | 9452 | 130 | 127 | 97.6923 | |
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 0.0000 | 0.0000 | 27.3743 | 59.8655 | 0 | 168 | 49 | 130 | 40 | 30.7692 | |
| gduggal-snapvard | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.0062 | 96.7177 | 99.3296 | 54.4844 | 19536 | 663 | 19261 | 130 | 58 | 44.6154 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 14.4737 | 90.2062 | 0 | 0 | 22 | 130 | 4 | 3.0769 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 0.0000 | 0.0000 | 12.1622 | 90.0738 | 0 | 0 | 18 | 130 | 4 | 3.0769 | |
| gduggal-snapvard | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 0.0000 | 0.0000 | 41.1765 | 88.7014 | 0 | 0 | 91 | 130 | 35 | 26.9231 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 54.7324 | 72.4832 | 43.9655 | 65.0075 | 108 | 41 | 102 | 130 | 119 | 91.5385 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 45.2414 | 29.6315 | 95.6081 | 53.7572 | 2388 | 5671 | 2830 | 130 | 123 | 94.6154 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 45.2414 | 29.6315 | 95.6081 | 53.7572 | 2388 | 5671 | 2830 | 130 | 123 | 94.6154 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 40.4915 | 37.7049 | 43.7229 | 36.0111 | 23 | 38 | 101 | 130 | 128 | 98.4615 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 30.4333 | 23.1388 | 44.4444 | 77.7989 | 115 | 382 | 104 | 130 | 109 | 83.8462 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 54.8356 | 78.1955 | 42.2222 | 77.3642 | 104 | 29 | 95 | 130 | 109 | 83.8462 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 38.9465 | 31.2500 | 51.6729 | 83.5071 | 150 | 330 | 139 | 130 | 89 | 68.4615 | |
| rpoplin-dv42 | INDEL | D1_5 | HG002complexvar | * | 99.3660 | 99.1319 | 99.6013 | 57.4494 | 32431 | 284 | 32474 | 130 | 115 | 88.4615 | |
| hfeng-pmm1 | SNP | * | map_l100_m2_e1 | het | 99.4258 | 99.1322 | 99.7211 | 65.3522 | 46491 | 407 | 46480 | 130 | 32 | 24.6154 | |
| hfeng-pmm2 | SNP | * | map_l250_m2_e1 | * | 98.6325 | 98.8857 | 98.3807 | 89.9200 | 7898 | 89 | 7898 | 130 | 16 | 12.3077 | |
| hfeng-pmm2 | SNP | * | segdup | * | 99.6762 | 99.8147 | 99.5380 | 90.2632 | 28015 | 52 | 28009 | 130 | 13 | 10.0000 | |
| hfeng-pmm1 | SNP | * | map_l100_m0_e0 | * | 99.3989 | 99.1931 | 99.6055 | 67.8013 | 32576 | 265 | 32572 | 129 | 37 | 28.6822 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.1330 | 96.7301 | 99.5772 | 56.3405 | 30381 | 1027 | 30382 | 129 | 103 | 79.8450 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.1330 | 96.7301 | 99.5772 | 56.3405 | 30381 | 1027 | 30382 | 129 | 103 | 79.8450 | |
| hfeng-pmm3 | INDEL | D6_15 | * | het | 98.2130 | 97.5673 | 98.8673 | 58.6531 | 11310 | 282 | 11260 | 129 | 115 | 89.1473 | |
| astatham-gatk | INDEL | D6_15 | HG002compoundhet | homalt | 27.1186 | 100.0000 | 15.6863 | 70.9677 | 24 | 0 | 24 | 129 | 129 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.0814 | 91.6918 | 96.5990 | 62.3710 | 3653 | 331 | 3664 | 129 | 115 | 89.1473 | |
| anovak-vg | SNP | tv | map_siren | homalt | 93.6911 | 88.7935 | 99.1605 | 53.2549 | 15308 | 1932 | 15238 | 129 | 93 | 72.0930 | |
| anovak-vg | INDEL | C1_5 | HG002complexvar | * | 63.2248 | 71.4286 | 56.7114 | 83.4812 | 5 | 2 | 169 | 129 | 19 | 14.7287 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.6721 | 99.9315 | 99.4140 | 76.0962 | 21884 | 15 | 21884 | 129 | 128 | 99.2248 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.6444 | 99.7860 | 95.5928 | 54.4932 | 2798 | 6 | 2798 | 129 | 127 | 98.4496 | |