PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
8001-8050 / 86044 show all | |||||||||||||||
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.3952 | 94.2799 | 98.6075 | 61.7292 | 7928 | 481 | 7931 | 112 | 102 | 91.0714 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 0.0000 | 95.4081 | 0.0000 | 0.0000 | 9994 | 481 | 0 | 0 | 0 | ||
| ghariani-varprowl | SNP | * | map_l150_m2_e1 | * | 97.6142 | 98.5067 | 96.7377 | 80.7467 | 31729 | 481 | 31729 | 1070 | 224 | 20.9346 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 83.7845 | 74.5493 | 95.6314 | 66.3759 | 1406 | 480 | 1401 | 64 | 53 | 82.8125 | |
| gduggal-snapfb | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 480 | 0 | 0 | 0 | |||
| gduggal-snapplat | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 480 | 0 | 0 | 0 | |||
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.9344 | 96.1664 | 99.7686 | 57.4637 | 12041 | 480 | 12074 | 28 | 18 | 64.2857 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.1965 | 97.0144 | 99.4078 | 64.7466 | 15597 | 480 | 15611 | 93 | 72 | 77.4194 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.1965 | 97.0144 | 99.4078 | 64.7466 | 15597 | 480 | 15611 | 93 | 72 | 77.4194 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 83.7845 | 74.5493 | 95.6314 | 65.9144 | 1406 | 480 | 1401 | 64 | 57 | 89.0625 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 83.2773 | 71.8970 | 98.9378 | 35.0419 | 1228 | 480 | 1304 | 14 | 10 | 71.4286 | |
| ciseli-custom | INDEL | * | map_l125_m2_e0 | het | 68.9335 | 65.4925 | 72.7562 | 91.5977 | 911 | 480 | 916 | 343 | 203 | 59.1837 | |
| anovak-vg | INDEL | I1_5 | map_l100_m1_e0 | het | 47.9187 | 38.2239 | 64.2023 | 89.2961 | 297 | 480 | 330 | 184 | 31 | 16.8478 | |
| anovak-vg | SNP | * | map_l250_m0_e0 | * | 72.9992 | 77.5176 | 68.9786 | 95.8110 | 1655 | 480 | 1641 | 738 | 163 | 22.0867 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 90.5655 | 87.6892 | 93.6369 | 59.5069 | 3419 | 480 | 3414 | 232 | 224 | 96.5517 | |
| hfeng-pmm2 | INDEL | D6_15 | * | hetalt | 96.9508 | 94.1277 | 99.9483 | 34.1160 | 7694 | 480 | 7740 | 4 | 3 | 75.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | HG002compoundhet | hetalt | 96.9666 | 94.1234 | 99.9870 | 24.8188 | 7672 | 479 | 7675 | 1 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.9125 | 94.0563 | 99.9476 | 30.4494 | 7580 | 479 | 7625 | 4 | 3 | 75.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.9125 | 94.0563 | 99.9476 | 30.4494 | 7580 | 479 | 7625 | 4 | 3 | 75.0000 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 56.5111 | 56.6123 | 56.4103 | 93.4064 | 625 | 479 | 638 | 493 | 43 | 8.7221 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 9.6226 | 0.0000 | 0.0000 | 51 | 479 | 0 | 0 | 0 | ||
| ghariani-varprowl | SNP | * | map_l150_m2_e0 | * | 97.6045 | 98.4962 | 96.7287 | 80.6842 | 31373 | 479 | 31373 | 1061 | 223 | 21.0179 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 29.8168 | 22.2403 | 45.2229 | 54.6898 | 137 | 479 | 142 | 172 | 160 | 93.0233 | |
| rpoplin-dv42 | SNP | ti | map_siren | * | 99.6562 | 99.5227 | 99.7902 | 53.3616 | 99876 | 479 | 99868 | 210 | 138 | 65.7143 | |
| jli-custom | INDEL | D1_5 | HG002compoundhet | hetalt | 97.3992 | 95.3113 | 99.5807 | 60.0898 | 9737 | 479 | 9737 | 41 | 40 | 97.5610 | |
| jli-custom | INDEL | I6_15 | HG002compoundhet | * | 95.9804 | 94.5419 | 97.4633 | 35.3700 | 8297 | 479 | 8299 | 216 | 208 | 96.2963 | |
| ndellapenna-hhga | SNP | ti | map_l100_m1_e0 | het | 99.0953 | 98.4002 | 99.8002 | 62.6312 | 29463 | 479 | 29465 | 59 | 24 | 40.6780 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 94.1392 | 0.0000 | 0.0000 | 7694 | 479 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 6.1644 | 3.6217 | 20.6897 | 83.3652 | 18 | 479 | 18 | 69 | 58 | 84.0580 | |
| anovak-vg | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 9.6226 | 0.0000 | 0.0000 | 51 | 479 | 0 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | * | HG002complexvar | * | 99.4954 | 99.3774 | 99.6137 | 58.2041 | 76459 | 479 | 76328 | 296 | 257 | 86.8243 | |
| asubramanian-gatk | SNP | tv | map_l250_m0_e0 | het | 28.2282 | 16.4336 | 100.0000 | 99.2644 | 94 | 478 | 94 | 0 | 0 | ||
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 16.9764 | 10.8209 | 39.3750 | 52.0958 | 58 | 478 | 63 | 97 | 77 | 79.3814 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 92.0742 | 88.4708 | 95.9835 | 76.8106 | 3668 | 478 | 3728 | 156 | 82 | 52.5641 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 62.9766 | 49.2569 | 87.2897 | 84.9168 | 464 | 478 | 467 | 68 | 2 | 2.9412 | |
| jpowers-varprowl | INDEL | D1_5 | HG002complexvar | homalt | 96.2485 | 95.4897 | 97.0194 | 51.0621 | 10120 | 478 | 10058 | 309 | 250 | 80.9061 | |
| qzeng-custom | SNP | * | HG002compoundhet | * | 98.2824 | 98.1489 | 98.4164 | 46.9711 | 25344 | 478 | 25604 | 412 | 148 | 35.9223 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 94.8642 | 98.5648 | 91.4314 | 69.9321 | 32759 | 477 | 33260 | 3117 | 2975 | 95.4443 | |
| ltrigg-rtg2 | SNP | ti | map_l150_m2_e1 | * | 98.7779 | 97.6982 | 99.8816 | 65.7932 | 20246 | 477 | 20250 | 24 | 7 | 29.1667 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.6358 | 95.7046 | 99.6464 | 30.5076 | 10628 | 477 | 10709 | 38 | 37 | 97.3684 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 97.1571 | 94.8660 | 99.5615 | 32.7282 | 8814 | 477 | 8855 | 39 | 37 | 94.8718 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 97.1571 | 94.8660 | 99.5615 | 32.7282 | 8814 | 477 | 8855 | 39 | 37 | 94.8718 | |
| gduggal-snapplat | INDEL | I1_5 | HG002compoundhet | het | 19.8395 | 43.8824 | 12.8171 | 74.6754 | 373 | 477 | 485 | 3299 | 129 | 3.9103 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 0.0000 | 26.6154 | 0.0000 | 0.0000 | 173 | 477 | 0 | 0 | 0 | ||
| gduggal-snapvard | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 1.2251 | 0.6250 | 30.7692 | 75.3555 | 3 | 477 | 16 | 36 | 11 | 30.5556 | |
| ghariani-varprowl | INDEL | D1_5 | HG002complexvar | homalt | 95.9196 | 95.4992 | 96.3438 | 51.1776 | 10121 | 477 | 10066 | 382 | 245 | 64.1361 | |
| jmaeng-gatk | SNP | ti | map_l250_m0_e0 | het | 64.8227 | 48.9293 | 96.0084 | 98.4090 | 457 | 477 | 457 | 19 | 2 | 10.5263 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 92.8504 | 88.1608 | 98.0670 | 34.4871 | 3552 | 477 | 1522 | 30 | 30 | 100.0000 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 37.3529 | 30.5677 | 48.0100 | 79.3529 | 210 | 477 | 193 | 209 | 153 | 73.2057 | |
| egarrison-hhga | SNP | * | HG002complexvar | homalt | 99.8875 | 99.8351 | 99.9400 | 19.8887 | 288098 | 476 | 288126 | 173 | 140 | 80.9249 | |