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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
16301-16350 / 86044 show all | |||||||||||||||
| gduggal-snapvard | INDEL | I1_5 | map_l150_m0_e0 | * | 87.1622 | 93.1818 | 81.8731 | 92.8122 | 164 | 12 | 271 | 60 | 15 | 25.0000 | |
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 94.7982 | 92.4763 | 97.2396 | 66.7223 | 1561 | 127 | 1550 | 44 | 15 | 34.0909 | |
| gduggal-snapvard | SNP | ti | map_l125_m0_e0 | homalt | 96.9471 | 94.4778 | 99.5488 | 70.5648 | 4243 | 248 | 4192 | 19 | 15 | 78.9474 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 48.9054 | 43.8596 | 55.2632 | 99.4833 | 25 | 32 | 21 | 17 | 14 | 82.3529 | |
| gduggal-snapvard | INDEL | D6_15 | map_l150_m1_e0 | het | 78.6517 | 89.7436 | 70.0000 | 90.1478 | 35 | 4 | 56 | 24 | 14 | 58.3333 | |
| gduggal-snapvard | INDEL | I1_5 | map_l150_m0_e0 | het | 85.2218 | 98.1132 | 75.3247 | 93.9718 | 104 | 2 | 174 | 57 | 14 | 24.5614 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 96.3550 | 97.1312 | 95.5910 | 44.3893 | 7144 | 211 | 7068 | 326 | 14 | 4.2945 | |
| gduggal-snapvard | SNP | ti | func_cds | * | 99.4321 | 99.1151 | 99.7511 | 27.3375 | 13665 | 122 | 13628 | 34 | 14 | 41.1765 | |
| gduggal-snapvard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 29.5626 | 82.2368 | 18.0203 | 88.7412 | 125 | 27 | 142 | 646 | 14 | 2.1672 | |
| gduggal-snapvard | SNP | ti | segdup | het | 98.2336 | 97.4314 | 99.0491 | 94.0407 | 11721 | 309 | 11666 | 112 | 14 | 12.5000 | |
| gduggal-snapvard | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 81.8084 | 94.5910 | 72.0693 | 83.9601 | 1434 | 82 | 1414 | 548 | 14 | 2.5547 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 23.5294 | 13.9276 | 75.7576 | 73.7052 | 50 | 309 | 50 | 16 | 14 | 87.5000 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 17.5627 | 9.9796 | 73.1343 | 69.4064 | 49 | 442 | 49 | 18 | 14 | 77.7778 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 18.4615 | 11.0599 | 55.8140 | 75.1445 | 24 | 193 | 24 | 19 | 14 | 73.6842 | |
| gduggal-snapplat | SNP | * | map_l100_m1_e0 | homalt | 95.8529 | 92.1009 | 99.9236 | 61.4019 | 24870 | 2133 | 24854 | 19 | 14 | 73.6842 | |
| gduggal-snapplat | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 83.5589 | 88.9822 | 78.7587 | 90.6848 | 1801 | 223 | 1802 | 486 | 14 | 2.8807 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 89.0414 | 87.1669 | 90.9983 | 69.2267 | 2126 | 313 | 2133 | 211 | 14 | 6.6351 | |
| gduggal-snapplat | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 92.2399 | 86.3055 | 99.0506 | 51.0836 | 3441 | 546 | 3443 | 33 | 14 | 42.4242 | |
| gduggal-snapplat | SNP | tv | map_l250_m0_e0 | * | 81.2227 | 72.9412 | 91.6256 | 96.8509 | 558 | 207 | 558 | 51 | 14 | 27.4510 | |
| gduggal-snapplat | SNP | tv | map_l250_m0_e0 | het | 79.8457 | 72.3776 | 89.0323 | 97.1314 | 414 | 158 | 414 | 51 | 14 | 27.4510 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 88.2353 | 93.6395 | 0 | 0 | 165 | 22 | 14 | 63.6364 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 4.7019 | 2.5478 | 30.4348 | 66.6667 | 4 | 153 | 7 | 16 | 14 | 87.5000 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | het | 5.9197 | 3.2787 | 30.4348 | 64.6154 | 2 | 59 | 7 | 16 | 14 | 87.5000 | |
| gduggal-snapfb | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 15.1142 | 85.1485 | 8.2932 | 83.7435 | 86 | 15 | 86 | 951 | 14 | 1.4721 | |
| gduggal-snapfb | SNP | ti | map_l125_m1_e0 | homalt | 97.7417 | 95.8081 | 99.7549 | 73.6978 | 10582 | 463 | 10583 | 26 | 14 | 53.8462 | |
| gduggal-snapfb | SNP | ti | map_l125_m2_e0 | homalt | 97.7959 | 95.9060 | 99.7619 | 75.2353 | 10893 | 465 | 10894 | 26 | 14 | 53.8462 | |
| gduggal-snapfb | SNP | ti | map_l125_m2_e1 | homalt | 97.8156 | 95.9417 | 99.7641 | 75.2443 | 10993 | 465 | 10994 | 26 | 14 | 53.8462 | |
| gduggal-snapfb | SNP | ti | map_l150_m1_e0 | homalt | 97.0877 | 94.6363 | 99.6694 | 78.6440 | 6934 | 393 | 6935 | 23 | 14 | 60.8696 | |
| gduggal-snapfb | SNP | ti | map_l150_m2_e0 | homalt | 97.1871 | 94.8136 | 99.6825 | 79.8291 | 7221 | 395 | 7222 | 23 | 14 | 60.8696 | |
| gduggal-snapfb | SNP | ti | map_l150_m2_e1 | homalt | 97.2023 | 94.8395 | 99.6858 | 79.8530 | 7296 | 397 | 7297 | 23 | 14 | 60.8696 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 81.9563 | 92.6437 | 73.4797 | 72.5162 | 403 | 32 | 435 | 157 | 14 | 8.9172 | |
| gduggal-snapfb | INDEL | D1_5 | map_l100_m2_e1 | * | 96.0476 | 95.9257 | 96.1698 | 84.5601 | 1860 | 79 | 1858 | 74 | 14 | 18.9189 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 50.2318 | 34.6784 | 91.0828 | 15.1351 | 275 | 518 | 143 | 14 | 14 | 100.0000 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 90.8187 | 92.0128 | 89.6552 | 50.4274 | 288 | 25 | 156 | 18 | 14 | 77.7778 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 72.9446 | 66.2921 | 81.0811 | 71.4286 | 59 | 30 | 60 | 14 | 14 | 100.0000 | |
| ghariani-varprowl | SNP | * | func_cds | * | 99.5441 | 99.8512 | 99.2389 | 30.8362 | 18123 | 27 | 18123 | 139 | 14 | 10.0719 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 95.6108 | 99.3560 | 92.1377 | 74.6935 | 2160 | 14 | 2168 | 185 | 14 | 7.5676 | |
| raldana-dualsentieon | INDEL | D16_PLUS | HG002compoundhet | homalt | 53.3333 | 100.0000 | 36.3636 | 74.1176 | 8 | 0 | 8 | 14 | 14 | 100.0000 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.7985 | 99.2278 | 94.4853 | 59.5238 | 257 | 2 | 257 | 15 | 14 | 93.3333 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.8252 | 99.7211 | 97.9452 | 60.2829 | 715 | 2 | 715 | 15 | 14 | 93.3333 | |
| raldana-dualsentieon | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.0144 | 98.4246 | 99.6113 | 60.1683 | 34861 | 558 | 34851 | 136 | 14 | 10.2941 | |
| raldana-dualsentieon | SNP | ti | map_siren | homalt | 99.8878 | 99.8127 | 99.9630 | 48.3820 | 37845 | 71 | 37839 | 14 | 14 | 100.0000 | |
| rpoplin-dv42 | INDEL | * | map_l125_m2_e1 | * | 98.0600 | 97.6180 | 98.5061 | 98.7184 | 2172 | 53 | 2176 | 33 | 14 | 42.4242 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.0666 | 85.7988 | 99.3224 | 30.2027 | 2030 | 336 | 2052 | 14 | 14 | 100.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | HG002complexvar | homalt | 99.7169 | 99.5464 | 99.8881 | 51.4705 | 13387 | 61 | 13384 | 15 | 14 | 93.3333 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.8153 | 96.5079 | 97.1246 | 67.5311 | 608 | 22 | 608 | 18 | 14 | 77.7778 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.9427 | 98.5704 | 99.3179 | 69.3175 | 2620 | 38 | 2621 | 18 | 14 | 77.7778 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 86.4198 | 78.3582 | 96.3303 | 63.2997 | 420 | 116 | 420 | 16 | 14 | 87.5000 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 96.0002 | 95.9052 | 96.0954 | 70.9880 | 445 | 19 | 443 | 18 | 14 | 77.7778 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 99.0365 | 99.1497 | 98.9235 | 87.9760 | 1749 | 15 | 1746 | 19 | 14 | 73.6842 | |