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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
42001-42050 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 54.3940 | 75.8621 | 42.3963 | 99.8352 | 66 | 21 | 92 | 125 | 2 | 1.6000 | |
| qzeng-custom | INDEL | D6_15 | map_l125_m0_e0 | het | 78.9744 | 75.8621 | 82.3529 | 94.6875 | 22 | 7 | 42 | 9 | 1 | 11.1111 | |
| jpowers-varprowl | INDEL | D6_15 | map_l150_m2_e1 | homalt | 86.2745 | 75.8621 | 100.0000 | 85.9873 | 22 | 7 | 22 | 0 | 0 | ||
| egarrison-hhga | INDEL | D16_PLUS | map_l100_m1_e0 | * | 79.1409 | 75.8621 | 82.7160 | 87.3635 | 66 | 21 | 67 | 14 | 11 | 78.5714 | |
| astatham-gatk | SNP | tv | map_l125_m1_e0 | het | 86.0971 | 75.8345 | 99.5720 | 79.9490 | 7679 | 2447 | 7677 | 33 | 8 | 24.2424 | |
| gduggal-bwaplat | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 84.9692 | 75.8339 | 96.6071 | 82.4013 | 4729 | 1507 | 4755 | 167 | 52 | 31.1377 | |
| gduggal-snapvard | INDEL | D6_15 | HG002complexvar | het | 73.6293 | 75.8333 | 71.5498 | 53.1509 | 2366 | 754 | 2867 | 1140 | 832 | 72.9825 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 85.2150 | 75.8321 | 97.2477 | 53.3761 | 1481 | 472 | 1484 | 42 | 37 | 88.0952 | |
| ckim-vqsr | SNP | ti | map_l100_m2_e1 | het | 85.9506 | 75.8301 | 99.1886 | 83.8404 | 23477 | 7483 | 23472 | 192 | 12 | 6.2500 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 85.5556 | 75.8206 | 98.1586 | 82.6237 | 693 | 221 | 693 | 13 | 2 | 15.3846 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 81.0289 | 75.8175 | 87.0096 | 52.5248 | 997 | 318 | 998 | 149 | 131 | 87.9195 | |
| qzeng-custom | INDEL | D1_5 | map_l125_m0_e0 | * | 84.7268 | 75.8065 | 96.0265 | 93.8384 | 376 | 120 | 435 | 18 | 15 | 83.3333 | |
| ndellapenna-hhga | INDEL | * | map_l100_m1_e0 | hetalt | 84.1295 | 75.8065 | 94.5055 | 88.4664 | 94 | 30 | 86 | 5 | 2 | 40.0000 | |
| qzeng-custom | INDEL | * | map_l100_m1_e0 | hetalt | 86.2385 | 75.8065 | 100.0000 | 90.2527 | 94 | 30 | 27 | 0 | 0 | ||
| ciseli-custom | SNP | tv | map_l250_m2_e1 | homalt | 78.9120 | 75.7928 | 82.2989 | 88.6021 | 717 | 229 | 716 | 154 | 111 | 72.0779 | |
| ghariani-varprowl | INDEL | D6_15 | map_l125_m2_e1 | * | 78.2258 | 75.7812 | 80.8333 | 92.4051 | 97 | 31 | 97 | 23 | 21 | 91.3043 | |
| qzeng-custom | INDEL | I6_15 | map_l100_m1_e0 | homalt | 61.0583 | 75.7576 | 51.1364 | 71.4286 | 25 | 8 | 45 | 43 | 0 | 0.0000 | |
| qzeng-custom | INDEL | I6_15 | map_l100_m2_e0 | homalt | 61.4480 | 75.7576 | 51.6854 | 73.5905 | 25 | 8 | 46 | 43 | 0 | 0.0000 | |
| qzeng-custom | INDEL | I6_15 | map_l100_m2_e1 | homalt | 61.4480 | 75.7576 | 51.6854 | 74.0525 | 25 | 8 | 46 | 43 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 86.2069 | 75.7576 | 100.0000 | 59.0164 | 25 | 8 | 25 | 0 | 0 | ||
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 77.7614 | 75.7576 | 79.8742 | 91.5962 | 125 | 40 | 127 | 32 | 21 | 65.6250 | |
| ndellapenna-hhga | INDEL | * | map_l100_m0_e0 | hetalt | 81.2065 | 75.7576 | 87.5000 | 92.6380 | 25 | 8 | 21 | 3 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | * | map_l100_m2_e1 | hetalt | 83.8498 | 75.7576 | 93.8776 | 89.0990 | 100 | 32 | 92 | 6 | 2 | 33.3333 | |
| raldana-dualsentieon | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | het | 86.2069 | 75.7576 | 100.0000 | 94.2661 | 50 | 16 | 50 | 0 | 0 | ||
| anovak-vg | INDEL | * | tech_badpromoters | homalt | 76.1124 | 75.7576 | 76.4706 | 47.6923 | 25 | 8 | 26 | 8 | 7 | 87.5000 | |
| eyeh-varpipe | INDEL | I6_15 | map_l100_m0_e0 | * | 82.7852 | 75.7576 | 91.2500 | 78.7798 | 25 | 8 | 73 | 7 | 5 | 71.4286 | |
| eyeh-varpipe | INDEL | I6_15 | map_l100_m1_e0 | homalt | 77.9540 | 75.7576 | 80.2817 | 77.2436 | 25 | 8 | 57 | 14 | 14 | 100.0000 | |
| eyeh-varpipe | INDEL | I6_15 | map_l100_m2_e0 | homalt | 78.0829 | 75.7576 | 80.5556 | 78.2477 | 25 | 8 | 58 | 14 | 14 | 100.0000 | |
| eyeh-varpipe | INDEL | I6_15 | map_l100_m2_e1 | homalt | 77.5608 | 75.7576 | 79.4521 | 78.2090 | 25 | 8 | 58 | 15 | 15 | 100.0000 | |
| gduggal-bwafb | INDEL | I6_15 | map_l100_m0_e0 | * | 84.7458 | 75.7576 | 96.1538 | 87.0000 | 25 | 8 | 25 | 1 | 1 | 100.0000 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 86.2069 | 75.7576 | 100.0000 | 59.3220 | 25 | 8 | 24 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 85.7805 | 75.7534 | 98.8670 | 41.8516 | 1659 | 531 | 1658 | 19 | 17 | 89.4737 | |
| mlin-fermikit | INDEL | I6_15 | map_siren | * | 81.7172 | 75.7377 | 88.7218 | 80.5981 | 231 | 74 | 236 | 30 | 28 | 93.3333 | |
| ckim-gatk | SNP | * | map_l150_m2_e0 | het | 84.9182 | 75.7364 | 96.6335 | 90.2699 | 15248 | 4885 | 15242 | 531 | 41 | 7.7213 | |
| mlin-fermikit | SNP | ti | map_siren | * | 84.2869 | 75.7361 | 95.0143 | 45.5372 | 76005 | 24350 | 76001 | 3988 | 3501 | 87.7884 | |
| asubramanian-gatk | INDEL | I1_5 | map_l150_m2_e0 | het | 84.1893 | 75.7282 | 94.7791 | 94.2798 | 234 | 75 | 236 | 13 | 1 | 7.6923 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 75.6187 | 75.7143 | 75.5233 | 66.0841 | 477 | 153 | 469 | 152 | 89 | 58.5526 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 83.9657 | 75.7143 | 94.2356 | 75.6856 | 371 | 119 | 376 | 23 | 20 | 86.9565 | |
| astatham-gatk | SNP | ti | map_l150_m2_e0 | het | 86.0268 | 75.7084 | 99.6015 | 83.8910 | 9752 | 3129 | 9748 | 39 | 19 | 48.7179 | |
| gduggal-bwaplat | SNP | * | map_siren | homalt | 86.1632 | 75.7053 | 99.9736 | 58.6738 | 41756 | 13400 | 41721 | 11 | 9 | 81.8182 | |
| jmaeng-gatk | SNP | * | map_l150_m2_e0 | het | 84.8178 | 75.7016 | 96.4302 | 90.4936 | 15241 | 4892 | 15235 | 564 | 39 | 6.9149 | |
| ckim-vqsr | SNP | ti | map_l100_m2_e0 | het | 85.8634 | 75.7005 | 99.1784 | 83.8574 | 23181 | 7441 | 23176 | 192 | 12 | 6.2500 | |
| ckim-isaac | SNP | ti | map_siren | * | 86.1284 | 75.6983 | 99.8922 | 49.9174 | 75967 | 24388 | 75975 | 82 | 16 | 19.5122 | |
| gduggal-snapplat | SNP | * | map_l250_m0_e0 | het | 82.6147 | 75.6972 | 90.9236 | 97.0301 | 1140 | 366 | 1142 | 114 | 41 | 35.9649 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 85.9606 | 75.6948 | 99.4477 | 36.9246 | 2669 | 857 | 2521 | 14 | 12 | 85.7143 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 85.9606 | 75.6948 | 99.4477 | 36.9246 | 2669 | 857 | 2521 | 14 | 12 | 85.7143 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 84.8964 | 75.6945 | 96.6451 | 41.6459 | 7929 | 2546 | 7922 | 275 | 269 | 97.8182 | |
| astatham-gatk | SNP | ti | map_l150_m2_e1 | het | 86.0111 | 75.6819 | 99.6055 | 83.9600 | 9850 | 3165 | 9846 | 39 | 19 | 48.7179 | |
| gduggal-snapfb | INDEL | D6_15 | map_l125_m2_e1 | homalt | 82.3529 | 75.6757 | 90.3226 | 90.4615 | 28 | 9 | 28 | 3 | 3 | 100.0000 | |
| gduggal-snapplat | INDEL | D1_5 | map_l250_m2_e1 | * | 81.2198 | 75.6757 | 87.6404 | 97.8476 | 140 | 45 | 156 | 22 | 5 | 22.7273 | |