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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
69251-69300 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | SNP | * | map_l100_m2_e1 | homalt | 99.8561 | 99.8381 | 99.8740 | 63.2761 | 27751 | 45 | 27751 | 35 | 17 | 48.5714 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.3292 | 95.2834 | 99.4647 | 22.7525 | 6505 | 322 | 6504 | 35 | 34 | 97.1429 | |
| rpoplin-dv42 | INDEL | D1_5 | map_siren | * | 99.0944 | 99.1782 | 99.0107 | 80.6593 | 3500 | 29 | 3503 | 35 | 15 | 42.8571 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 90.6947 | 87.3874 | 94.2623 | 81.0323 | 582 | 84 | 575 | 35 | 32 | 91.4286 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 90.6947 | 87.3874 | 94.2623 | 81.0323 | 582 | 84 | 575 | 35 | 32 | 91.4286 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.4511 | 98.9430 | 97.9639 | 73.8833 | 1685 | 18 | 1684 | 35 | 28 | 80.0000 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.6387 | 99.6019 | 99.6756 | 81.2035 | 10758 | 43 | 10754 | 35 | 19 | 54.2857 | |
| rpoplin-dv42 | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.8590 | 99.8446 | 99.8734 | 64.1005 | 27635 | 43 | 27622 | 35 | 19 | 54.2857 | |
| raldana-dualsentieon | SNP | tv | map_l250_m1_e0 | het | 97.2943 | 96.5865 | 98.0125 | 88.5090 | 1726 | 61 | 1726 | 35 | 1 | 2.8571 | |
| rpoplin-dv42 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.3271 | 94.3866 | 98.3491 | 65.6458 | 2085 | 124 | 2085 | 35 | 29 | 82.8571 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.8625 | 98.1712 | 99.5636 | 45.3709 | 8213 | 153 | 8213 | 36 | 34 | 94.4444 | |
| raldana-dualsentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.3823 | 95.3945 | 99.4547 | 79.4362 | 6566 | 317 | 6566 | 36 | 9 | 25.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8087 | 99.7595 | 99.8579 | 55.0764 | 25298 | 61 | 25300 | 36 | 29 | 80.5556 | |
| rpoplin-dv42 | INDEL | D6_15 | HG002complexvar | hetalt | 92.5754 | 89.1412 | 96.2848 | 45.0369 | 903 | 110 | 933 | 36 | 35 | 97.2222 | |
| rpoplin-dv42 | INDEL | D6_15 | HG002compoundhet | hetalt | 96.0843 | 92.8720 | 99.5267 | 21.0341 | 7570 | 581 | 7570 | 36 | 35 | 97.2222 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 91.5223 | 87.0289 | 96.5049 | 73.3713 | 993 | 148 | 994 | 36 | 34 | 94.4444 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.9948 | 94.0299 | 93.9597 | 71.1380 | 567 | 36 | 560 | 36 | 34 | 94.4444 | |
| rpoplin-dv42 | SNP | ti | map_l100_m1_e0 | homalt | 99.6655 | 99.5323 | 99.7990 | 60.4404 | 17876 | 84 | 17877 | 36 | 34 | 94.4444 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 96.2011 | 96.5962 | 95.8091 | 80.4640 | 823 | 29 | 823 | 36 | 31 | 86.1111 | |
| ndellapenna-hhga | SNP | * | map_l250_m2_e0 | * | 98.1811 | 96.8675 | 99.5309 | 87.5400 | 7638 | 247 | 7638 | 36 | 19 | 52.7778 | |
| ndellapenna-hhga | SNP | ti | map_l100_m0_e0 | het | 98.6920 | 97.6686 | 99.7371 | 67.9732 | 13657 | 326 | 13658 | 36 | 19 | 52.7778 | |
| ndellapenna-hhga | SNP | ti | map_l150_m2_e0 | het | 98.7101 | 97.7253 | 99.7148 | 75.0553 | 12588 | 293 | 12588 | 36 | 17 | 47.2222 | |
| ndellapenna-hhga | SNP | tv | map_l150_m1_e0 | * | 98.9384 | 98.2221 | 99.6652 | 71.6791 | 10718 | 194 | 10718 | 36 | 17 | 47.2222 | |
| ndellapenna-hhga | SNP | tv | segdup | het | 99.3381 | 99.3569 | 99.3193 | 90.2972 | 5253 | 34 | 5253 | 36 | 2 | 5.5556 | |
| qzeng-custom | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 0.0000 | 0.0000 | 10.0000 | 89.5288 | 0 | 0 | 4 | 36 | 0 | 0.0000 | |
| qzeng-custom | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 0.0000 | 0.0000 | 10.0000 | 89.5288 | 0 | 0 | 4 | 36 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 97.9874 | 96.4793 | 99.5434 | 33.1326 | 7810 | 285 | 7849 | 36 | 36 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.7429 | 98.1158 | 99.3780 | 55.1561 | 5624 | 108 | 5752 | 36 | 18 | 50.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.3739 | 97.4595 | 99.3056 | 60.7094 | 5179 | 135 | 5148 | 36 | 21 | 58.3333 | |
| ltrigg-rtg2 | SNP | * | map_l150_m2_e0 | het | 98.1544 | 96.5480 | 99.8151 | 61.4966 | 19438 | 695 | 19439 | 36 | 2 | 5.5556 | |
| ltrigg-rtg2 | SNP | * | map_l150_m2_e1 | het | 98.1705 | 96.5771 | 99.8173 | 61.6528 | 19666 | 697 | 19666 | 36 | 2 | 5.5556 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 97.3013 | 96.9520 | 97.6532 | 73.8359 | 1495 | 47 | 1498 | 36 | 23 | 63.8889 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l100_m1_e0 | * | 97.6365 | 97.2403 | 98.0360 | 81.9551 | 1797 | 51 | 1797 | 36 | 17 | 47.2222 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l100_m2_e0 | * | 97.6927 | 97.2846 | 98.1043 | 82.7144 | 1863 | 52 | 1863 | 36 | 17 | 47.2222 | |
| qzeng-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 85.2476 | 92.3077 | 79.1908 | 94.6916 | 132 | 11 | 137 | 36 | 9 | 25.0000 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.3268 | 99.3263 | 97.3471 | 64.9445 | 1327 | 9 | 1321 | 36 | 3 | 8.3333 | |
| ltrigg-rtg2 | SNP | ti | HG002compoundhet | * | 99.3879 | 98.9873 | 99.7918 | 33.3089 | 17301 | 177 | 17255 | 36 | 13 | 36.1111 | |
| ltrigg-rtg2 | SNP | tv | map_l125_m2_e1 | * | 98.9559 | 98.1449 | 99.7803 | 61.1285 | 16348 | 309 | 16353 | 36 | 5 | 13.8889 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | het | 53.6585 | 91.6667 | 37.9310 | 51.2605 | 22 | 2 | 22 | 36 | 36 | 100.0000 | |
| mlin-fermikit | SNP | ti | func_cds | homalt | 99.5745 | 99.8294 | 99.3210 | 18.8179 | 5266 | 9 | 5266 | 36 | 34 | 94.4444 | |
| jli-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 98.3153 | 97.1961 | 99.4606 | 33.3866 | 6621 | 191 | 6638 | 36 | 35 | 97.2222 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.5795 | 95.7485 | 99.4819 | 26.9554 | 6869 | 305 | 6912 | 36 | 34 | 94.4444 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 78.7267 | 84.4595 | 73.7226 | 75.5793 | 125 | 23 | 101 | 36 | 36 | 100.0000 | |
| jli-custom | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1608 | 98.9184 | 99.4045 | 76.5307 | 6036 | 66 | 6009 | 36 | 20 | 55.5556 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2174 | 99.3885 | 99.0469 | 69.9044 | 3738 | 23 | 3741 | 36 | 34 | 94.4444 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.2174 | 99.3885 | 99.0469 | 69.9044 | 3738 | 23 | 3741 | 36 | 34 | 94.4444 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.7460 | 99.7576 | 95.8140 | 68.5212 | 823 | 2 | 824 | 36 | 35 | 97.2222 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.7460 | 99.7576 | 95.8140 | 68.5212 | 823 | 2 | 824 | 36 | 35 | 97.2222 | |
| jmaeng-gatk | SNP | tv | * | homalt | 99.5328 | 99.0793 | 99.9904 | 20.3157 | 373651 | 3472 | 373637 | 36 | 23 | 63.8889 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 87.0684 | 79.1574 | 96.7362 | 66.6465 | 1071 | 282 | 1067 | 36 | 34 | 94.4444 | |