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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
66301-66350 / 86044 show all | |||||||||||||||
| gduggal-snapvard | INDEL | * | map_l125_m1_e0 | het | 83.6174 | 95.9551 | 74.0909 | 89.7946 | 1281 | 54 | 1793 | 627 | 240 | 38.2775 | |
| gduggal-snapvard | INDEL | D1_5 | map_l100_m1_e0 | homalt | 94.3471 | 90.8784 | 98.0910 | 75.2992 | 538 | 54 | 668 | 13 | 12 | 92.3077 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.4705 | 97.6021 | 99.3545 | 52.3611 | 2198 | 54 | 2155 | 14 | 7 | 50.0000 | |
| gduggal-snapvard | INDEL | D1_5 | map_l100_m2_e0 | homalt | 94.4381 | 90.9984 | 98.1481 | 75.9754 | 556 | 55 | 689 | 13 | 12 | 92.3077 | |
| gduggal-snapvard | INDEL | I1_5 | segdup | homalt | 93.4028 | 88.3721 | 99.0408 | 89.7341 | 418 | 55 | 413 | 4 | 4 | 100.0000 | |
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.6335 | 98.6470 | 98.6200 | 49.6901 | 4010 | 55 | 4002 | 56 | 5 | 8.9286 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 65.9794 | 77.7328 | 57.3134 | 76.8487 | 192 | 55 | 192 | 143 | 141 | 98.6014 | |
| ghariani-varprowl | SNP | ti | map_l250_m2_e0 | homalt | 98.3169 | 96.8553 | 99.8232 | 88.3416 | 1694 | 55 | 1694 | 3 | 3 | 100.0000 | |
| hfeng-pmm1 | INDEL | * | map_l125_m1_e0 | het | 97.3032 | 95.8801 | 98.7692 | 85.2424 | 1280 | 55 | 1284 | 16 | 1 | 6.2500 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 81.0304 | 79.3233 | 82.8125 | 82.8188 | 211 | 55 | 212 | 44 | 39 | 88.6364 | |
| gduggal-snapplat | SNP | ti | func_cds | het | 99.3942 | 99.3532 | 99.4351 | 33.3621 | 8449 | 55 | 8449 | 48 | 4 | 8.3333 | |
| gduggal-snapvard | INDEL | * | map_l125_m2_e0 | het | 83.7572 | 96.0460 | 74.2562 | 90.2596 | 1336 | 55 | 1872 | 649 | 258 | 39.7535 | |
| gduggal-snapvard | INDEL | * | map_l125_m2_e1 | het | 83.7912 | 96.0938 | 74.2812 | 90.3789 | 1353 | 55 | 1886 | 653 | 259 | 39.6631 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 6.7797 | 3.5088 | 100.0000 | 99.9898 | 2 | 55 | 1 | 0 | 0 | ||
| gduggal-snapplat | INDEL | D6_15 | map_l150_m2_e0 | * | 46.1771 | 32.9268 | 77.2727 | 96.4573 | 27 | 55 | 17 | 5 | 1 | 20.0000 | |
| gduggal-snapplat | INDEL | I1_5 | func_cds | * | 72.3894 | 69.4444 | 75.5952 | 55.4377 | 125 | 55 | 127 | 41 | 1 | 2.4390 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 29.5150 | 19.1176 | 64.7059 | 79.0123 | 13 | 55 | 11 | 6 | 2 | 33.3333 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 32.0988 | 19.1176 | 100.0000 | 99.4775 | 13 | 55 | 13 | 0 | 0 | ||
| eyeh-varpipe | INDEL | D1_5 | map_siren | hetalt | 50.2165 | 34.5238 | 92.0635 | 93.5910 | 29 | 55 | 58 | 5 | 3 | 60.0000 | |
| eyeh-varpipe | INDEL | I1_5 | segdup | * | 95.8185 | 94.8064 | 96.8525 | 93.2732 | 1004 | 55 | 1077 | 35 | 29 | 82.8571 | |
| gduggal-bwafb | INDEL | D1_5 | map_l100_m1_e0 | * | 97.6299 | 97.0238 | 98.2437 | 83.5797 | 1793 | 55 | 1790 | 32 | 6 | 18.7500 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 53.1250 | 38.2022 | 87.1795 | 62.1359 | 34 | 55 | 34 | 5 | 5 | 100.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | map_siren | * | 59.2100 | 61.5385 | 57.0513 | 92.6450 | 88 | 55 | 89 | 67 | 35 | 52.2388 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 55 | 0 | 0 | 0 | |||
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 58.0656 | 77.6423 | 46.3731 | 78.9760 | 191 | 55 | 179 | 207 | 152 | 73.4300 | |
| eyeh-varpipe | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.3719 | 99.6869 | 95.1620 | 62.9872 | 17513 | 55 | 16385 | 833 | 63 | 7.5630 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 87.1298 | 99.3978 | 77.5574 | 83.2455 | 9078 | 55 | 8484 | 2455 | 50 | 2.0367 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 87.1298 | 99.3978 | 77.5574 | 83.2455 | 9078 | 55 | 8484 | 2455 | 50 | 2.0367 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l150_m0_e0 | het | 64.9682 | 48.1132 | 100.0000 | 97.9260 | 51 | 55 | 51 | 0 | 0 | ||
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 97.1756 | 97.7947 | 96.5643 | 68.6200 | 2439 | 55 | 2389 | 85 | 10 | 11.7647 | |
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 75.9578 | 85.7513 | 68.1720 | 92.2629 | 331 | 55 | 317 | 148 | 24 | 16.2162 | |
| gduggal-bwavard | SNP | ti | map_l250_m0_e0 | * | 86.4567 | 95.9854 | 78.6490 | 94.9013 | 1315 | 55 | 1304 | 354 | 10 | 2.8249 | |
| jpowers-varprowl | SNP | ti | map_l250_m2_e0 | homalt | 98.3169 | 96.8553 | 99.8232 | 89.5678 | 1694 | 55 | 1694 | 3 | 3 | 100.0000 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.0712 | 95.8175 | 98.3581 | 49.4267 | 1260 | 55 | 1258 | 21 | 13 | 61.9048 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.8845 | 99.1738 | 98.5968 | 78.6472 | 6602 | 55 | 6605 | 94 | 1 | 1.0638 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.1851 | 98.1667 | 98.2036 | 71.4828 | 2945 | 55 | 2952 | 54 | 8 | 14.8148 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.3381 | 99.4715 | 97.2303 | 50.5019 | 10352 | 55 | 10356 | 295 | 278 | 94.2373 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.1559 | 98.4882 | 99.8328 | 57.1769 | 3583 | 55 | 3583 | 6 | 4 | 66.6667 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 91.9102 | 91.6918 | 92.1296 | 76.9886 | 607 | 55 | 597 | 51 | 42 | 82.3529 | |
| rpoplin-dv42 | SNP | * | map_l250_m1_e0 | homalt | 98.6481 | 97.7670 | 99.5453 | 86.6597 | 2408 | 55 | 2408 | 11 | 11 | 100.0000 | |
| rpoplin-dv42 | SNP | tv | map_l125_m1_e0 | homalt | 99.4262 | 99.0614 | 99.7937 | 67.2577 | 5805 | 55 | 5805 | 12 | 12 | 100.0000 | |
| raldana-dualsentieon | SNP | * | map_l150_m1_e0 | homalt | 99.7067 | 99.5121 | 99.9020 | 67.3803 | 11218 | 55 | 11218 | 11 | 8 | 72.7273 | |
| rpoplin-dv42 | INDEL | D1_5 | HG002compoundhet | het | 90.2551 | 96.8171 | 84.5262 | 76.1853 | 1673 | 55 | 1677 | 307 | 300 | 97.7199 | |
| qzeng-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.4871 | 98.2529 | 96.7332 | 77.3918 | 3093 | 55 | 3198 | 108 | 35 | 32.4074 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2401 | 98.9858 | 99.4956 | 77.2155 | 5368 | 55 | 5326 | 27 | 13 | 48.1481 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.2401 | 98.9858 | 99.4956 | 77.2155 | 5368 | 55 | 5326 | 27 | 13 | 48.1481 | |
| mlin-fermikit | INDEL | * | map_l250_m0_e0 | * | 40.7080 | 29.4872 | 65.7143 | 95.2381 | 23 | 55 | 23 | 12 | 7 | 58.3333 | |
| mlin-fermikit | INDEL | * | map_l250_m1_e0 | homalt | 59.0164 | 49.5413 | 72.9730 | 91.3043 | 54 | 55 | 54 | 20 | 19 | 95.0000 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 91.5170 | 91.6918 | 91.3428 | 68.3622 | 607 | 55 | 1034 | 98 | 77 | 78.5714 | |
| mlin-fermikit | INDEL | D6_15 | HG002complexvar | homalt | 89.0670 | 95.2951 | 83.6029 | 66.2028 | 1114 | 55 | 1137 | 223 | 214 | 95.9641 | |