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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
38451-38500 / 86044 show all | |||||||||||||||
| qzeng-custom | SNP | ti | map_l250_m0_e0 | * | 67.6335 | 55.1825 | 87.3403 | 98.0910 | 756 | 614 | 752 | 109 | 86 | 78.8991 | |
| ckim-isaac | SNP | tv | map_l100_m0_e0 | * | 71.0742 | 55.1877 | 99.8043 | 69.9269 | 6117 | 4967 | 6119 | 12 | 3 | 25.0000 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 40.5092 | 55.2023 | 31.9936 | 87.5351 | 191 | 155 | 199 | 423 | 4 | 0.9456 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 66.4160 | 55.2083 | 83.3333 | 76.5144 | 212 | 172 | 210 | 42 | 31 | 73.8095 | |
| gduggal-bwaplat | INDEL | D16_PLUS | map_siren | * | 70.5357 | 55.2448 | 97.5309 | 95.0185 | 79 | 64 | 79 | 2 | 2 | 100.0000 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 69.0120 | 55.2569 | 91.8848 | 94.6637 | 699 | 566 | 702 | 62 | 14 | 22.5806 | |
| ciseli-custom | INDEL | * | tech_badpromoters | * | 58.7413 | 55.2632 | 62.6866 | 50.3704 | 42 | 34 | 42 | 25 | 17 | 68.0000 | |
| mlin-fermikit | INDEL | D1_5 | map_l150_m2_e1 | * | 67.1787 | 55.2699 | 85.6287 | 82.9069 | 430 | 348 | 429 | 72 | 64 | 88.8889 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 69.8222 | 55.2833 | 94.7368 | 83.6277 | 361 | 292 | 360 | 20 | 16 | 80.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 60.3133 | 55.2921 | 66.3376 | 42.9617 | 653 | 528 | 672 | 341 | 312 | 91.4956 | |
| mlin-fermikit | INDEL | D6_15 | map_l150_m2_e1 | het | 65.2113 | 55.3191 | 79.4118 | 85.2174 | 26 | 21 | 27 | 7 | 4 | 57.1429 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 61.2783 | 55.3295 | 68.6604 | 44.0399 | 2040 | 1647 | 1963 | 896 | 675 | 75.3348 | |
| ckim-vqsr | SNP | ti | map_l125_m2_e1 | * | 71.0090 | 55.3306 | 99.0860 | 88.2132 | 16914 | 13655 | 16912 | 156 | 5 | 3.2051 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 48.2628 | 55.3309 | 42.7960 | 40.3404 | 602 | 486 | 600 | 802 | 781 | 97.3815 | |
| jmaeng-gatk | SNP | * | map_l250_m2_e0 | * | 70.5188 | 55.3329 | 97.1931 | 96.2932 | 4363 | 3522 | 4363 | 126 | 10 | 7.9365 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 69.0799 | 55.3552 | 91.8541 | 94.6607 | 1504 | 1213 | 1511 | 134 | 31 | 23.1343 | |
| ghariani-varprowl | INDEL | I6_15 | * | * | 61.1674 | 55.3640 | 68.3299 | 52.2203 | 13743 | 11080 | 13763 | 6379 | 6287 | 98.5578 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 70.9325 | 55.3834 | 98.6207 | 47.8042 | 715 | 576 | 715 | 10 | 9 | 90.0000 | |
| gduggal-bwavard | INDEL | I6_15 | * | * | 60.2022 | 55.3881 | 65.9327 | 50.0878 | 13749 | 11074 | 13685 | 7071 | 6805 | 96.2382 | |
| ckim-isaac | SNP | tv | map_l150_m1_e0 | het | 71.1670 | 55.3988 | 99.4831 | 79.3620 | 3848 | 3098 | 3849 | 20 | 6 | 30.0000 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 17.9562 | 55.4054 | 10.7143 | 41.9355 | 82 | 66 | 81 | 675 | 674 | 99.8519 | |
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 70.6542 | 55.4252 | 97.4227 | 64.6630 | 189 | 152 | 189 | 5 | 5 | 100.0000 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 70.8184 | 55.4286 | 98.0392 | 71.1864 | 97 | 78 | 100 | 2 | 2 | 100.0000 | |
| gduggal-snapvard | INDEL | I6_15 | segdup | * | 60.2107 | 55.4286 | 65.8960 | 90.9708 | 97 | 78 | 114 | 59 | 50 | 84.7458 | |
| mlin-fermikit | INDEL | I6_15 | HG002compoundhet | hetalt | 71.1432 | 55.4293 | 99.2920 | 28.6902 | 4732 | 3805 | 4768 | 34 | 34 | 100.0000 | |
| ckim-vqsr | SNP | tv | map_l150_m0_e0 | het | 70.7202 | 55.4344 | 97.6456 | 94.7782 | 1576 | 1267 | 1576 | 38 | 0 | 0.0000 | |
| gduggal-bwaplat | INDEL | * | map_l125_m2_e0 | homalt | 71.3322 | 55.4391 | 100.0000 | 91.6370 | 423 | 340 | 423 | 0 | 0 | ||
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 57.8592 | 55.4482 | 60.4894 | 43.6279 | 17739 | 14253 | 30010 | 19602 | 17898 | 91.3070 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 69.4825 | 55.4545 | 93.0108 | 50.6631 | 183 | 147 | 173 | 13 | 9 | 69.2308 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 58.9492 | 55.4636 | 62.9024 | 64.8301 | 17420 | 13988 | 17390 | 10256 | 9749 | 95.0566 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 58.9492 | 55.4636 | 62.9024 | 64.8301 | 17420 | 13988 | 17390 | 10256 | 9749 | 95.0566 | |
| ckim-gatk | SNP | * | map_l250_m2_e0 | * | 70.6281 | 55.4724 | 97.1784 | 96.2246 | 4374 | 3511 | 4374 | 127 | 10 | 7.8740 | |
| mlin-fermikit | INDEL | I6_15 | * | hetalt | 71.1528 | 55.4789 | 99.1705 | 39.8078 | 4744 | 3807 | 4782 | 40 | 40 | 100.0000 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 51.6769 | 55.4825 | 48.3599 | 47.7729 | 506 | 406 | 516 | 551 | 538 | 97.6407 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 62.0854 | 55.5024 | 70.4403 | 70.2247 | 116 | 93 | 112 | 47 | 28 | 59.5745 | |
| ckim-isaac | SNP | tv | map_l125_m0_e0 | het | 71.3076 | 55.5101 | 99.6736 | 79.7505 | 2443 | 1958 | 2443 | 8 | 1 | 12.5000 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 65.8532 | 55.5178 | 80.9170 | 72.3914 | 654 | 524 | 653 | 154 | 116 | 75.3247 | |
| mlin-fermikit | SNP | ti | map_l100_m0_e0 | homalt | 63.6297 | 55.5184 | 74.5166 | 48.8430 | 4316 | 3458 | 4316 | 1476 | 1404 | 95.1220 | |
| gduggal-bwaplat | INDEL | * | HG002compoundhet | het | 66.0619 | 55.5447 | 81.4921 | 84.3450 | 2274 | 1820 | 2272 | 516 | 182 | 35.2713 | |
| mlin-fermikit | SNP | * | map_l100_m1_e0 | het | 71.0748 | 55.5458 | 98.6565 | 54.0604 | 25195 | 20164 | 25187 | 343 | 11 | 3.2070 | |
| mlin-fermikit | INDEL | I16_PLUS | map_l125_m1_e0 | het | 62.5000 | 55.5556 | 71.4286 | 88.7097 | 5 | 4 | 5 | 2 | 2 | 100.0000 | |
| mlin-fermikit | INDEL | I16_PLUS | map_l125_m2_e0 | het | 62.5000 | 55.5556 | 71.4286 | 89.7059 | 5 | 4 | 5 | 2 | 2 | 100.0000 | |
| mlin-fermikit | INDEL | I16_PLUS | map_l125_m2_e1 | het | 62.5000 | 55.5556 | 71.4286 | 89.8551 | 5 | 4 | 5 | 2 | 2 | 100.0000 | |
| mlin-fermikit | INDEL | I1_5 | map_l100_m0_e0 | hetalt | 71.4286 | 55.5556 | 100.0000 | 90.3846 | 5 | 4 | 5 | 0 | 0 | ||
| mlin-fermikit | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 0.0000 | 55.5556 | 0.0000 | 95.4545 | 5 | 4 | 0 | 2 | 2 | 100.0000 | |
| mlin-fermikit | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 62.5000 | 55.5556 | 71.4286 | 97.1074 | 15 | 12 | 15 | 6 | 3 | 50.0000 | |
| mlin-fermikit | SNP | tv | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 47.6190 | 55.5556 | 41.6667 | 96.1905 | 5 | 4 | 5 | 7 | 4 | 57.1429 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l125_m0_e0 | het | 50.0000 | 55.5556 | 45.4545 | 92.5676 | 5 | 4 | 5 | 6 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | map_l125_m0_e0 | het | 62.5000 | 55.5556 | 71.4286 | 93.9130 | 5 | 4 | 5 | 2 | 2 | 100.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 55.5556 | 100.0000 | 5 | 4 | 0 | 0 | 0 | ||||