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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
75251-75300 / 86044 show all | |||||||||||||||
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 54.2142 | 52.8090 | 55.6962 | 76.4881 | 94 | 84 | 88 | 70 | 43 | 61.4286 | |
| eyeh-varpipe | INDEL | D6_15 | map_l100_m1_e0 | * | 77.5749 | 72.0930 | 83.9590 | 83.4182 | 186 | 72 | 246 | 47 | 43 | 91.4894 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 85.8715 | 81.4199 | 90.8380 | 65.8788 | 539 | 123 | 813 | 82 | 43 | 52.4390 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 65.1949 | 54.6559 | 80.7692 | 61.1940 | 135 | 112 | 189 | 45 | 43 | 95.5556 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 92.7883 | 86.7091 | 99.7841 | 61.8573 | 24504 | 3756 | 24493 | 53 | 43 | 81.1321 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 81.7312 | 69.6640 | 98.8549 | 64.9750 | 4230 | 1842 | 4230 | 49 | 43 | 87.7551 | |
| gduggal-bwaplat | INDEL | D16_PLUS | * | het | 80.5941 | 68.7559 | 97.3566 | 80.9524 | 2172 | 987 | 2173 | 59 | 43 | 72.8814 | |
| gduggal-bwaplat | SNP | * | map_l125_m1_e0 | het | 79.2823 | 66.0433 | 99.1598 | 88.7864 | 18751 | 9641 | 18765 | 159 | 43 | 27.0440 | |
| gduggal-bwaplat | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 87.8326 | 79.5328 | 98.0666 | 79.9980 | 3847 | 990 | 3855 | 76 | 43 | 56.5789 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 92.6744 | 98.6011 | 87.4197 | 85.5642 | 4088 | 58 | 3676 | 529 | 43 | 8.1285 | |
| eyeh-varpipe | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.0524 | 98.8880 | 95.2837 | 61.3406 | 4802 | 54 | 4182 | 207 | 43 | 20.7729 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 85.7428 | 78.4150 | 94.5813 | 55.1133 | 752 | 207 | 768 | 44 | 43 | 97.7273 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 79.3169 | 69.8276 | 91.7910 | 57.6285 | 324 | 140 | 492 | 44 | 43 | 97.7273 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.3336 | 95.4207 | 99.3247 | 69.8100 | 11023 | 529 | 11031 | 75 | 43 | 57.3333 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 79.2739 | 93.8895 | 68.5957 | 88.9971 | 799 | 52 | 806 | 369 | 43 | 11.6531 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 86.1668 | 94.2029 | 79.3939 | 87.5000 | 1040 | 64 | 1048 | 272 | 43 | 15.8088 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.3336 | 95.4207 | 99.3247 | 69.8100 | 11023 | 529 | 11031 | 75 | 43 | 57.3333 | |
| jpowers-varprowl | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.7867 | 98.9531 | 98.6209 | 43.1645 | 7278 | 77 | 7294 | 102 | 43 | 42.1569 | |
| jli-custom | INDEL | D1_5 | HG002complexvar | hetalt | 93.0817 | 89.7929 | 96.6206 | 73.4123 | 1214 | 138 | 1258 | 44 | 43 | 97.7273 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.3548 | 99.1736 | 99.5367 | 47.6794 | 10321 | 86 | 10312 | 48 | 43 | 89.5833 | |
| ltrigg-rtg1 | INDEL | D6_15 | HG002complexvar | hetalt | 93.3550 | 91.2142 | 95.5988 | 55.5303 | 924 | 89 | 934 | 43 | 43 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | * | hetalt | 96.3487 | 93.3431 | 99.5544 | 62.8913 | 9563 | 682 | 9606 | 43 | 43 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | HG002complexvar | hetalt | 92.2064 | 88.1657 | 96.6354 | 72.5869 | 1192 | 160 | 1235 | 43 | 43 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 94.1029 | 98.9446 | 89.7129 | 61.3321 | 375 | 4 | 375 | 43 | 43 | 100.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.5493 | 93.8357 | 99.4245 | 23.8294 | 7596 | 499 | 7602 | 44 | 43 | 97.7273 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.5181 | 93.7722 | 99.4296 | 26.3580 | 7664 | 509 | 7670 | 44 | 43 | 97.7273 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.1200 | 95.0044 | 99.3320 | 25.8972 | 6542 | 344 | 6543 | 44 | 43 | 97.7273 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 94.9354 | 94.1445 | 95.7397 | 51.4296 | 1238 | 77 | 1236 | 55 | 43 | 78.1818 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.5900 | 96.6582 | 98.5399 | 68.6164 | 3442 | 119 | 3442 | 51 | 43 | 84.3137 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 74.0331 | 94.3662 | 60.9091 | 53.7815 | 67 | 4 | 67 | 43 | 43 | 100.0000 | |
| raldana-dualsentieon | SNP | * | * | het | 99.8865 | 99.8694 | 99.9036 | 19.2179 | 1871141 | 2446 | 1871016 | 1806 | 43 | 2.3810 | |
| rpoplin-dv42 | SNP | tv | map_l125_m0_e0 | het | 98.3333 | 98.5458 | 98.1217 | 74.3380 | 4337 | 64 | 4336 | 83 | 43 | 51.8072 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.3353 | 99.0372 | 99.6352 | 71.5761 | 32916 | 320 | 32773 | 120 | 43 | 35.8333 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 84.7458 | 91.1458 | 79.1855 | 59.0741 | 175 | 17 | 175 | 46 | 43 | 93.4783 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 82.7354 | 76.8750 | 89.5631 | 81.5825 | 369 | 111 | 369 | 43 | 43 | 100.0000 | |
| mlin-fermikit | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.8184 | 94.7230 | 94.9141 | 71.6532 | 1436 | 80 | 1437 | 77 | 43 | 55.8442 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 81.9603 | 79.1667 | 84.9582 | 78.0562 | 304 | 80 | 305 | 54 | 43 | 79.6296 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 81.2239 | 74.1883 | 89.7338 | 67.9659 | 457 | 159 | 472 | 54 | 43 | 79.6296 | |
| qzeng-custom | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.8622 | 99.1709 | 98.5554 | 65.0606 | 17703 | 148 | 17874 | 262 | 43 | 16.4122 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 93.5488 | 98.1667 | 89.3458 | 72.6223 | 2945 | 55 | 3346 | 399 | 43 | 10.7769 | |
| qzeng-custom | INDEL | D1_5 | map_siren | * | 93.2868 | 89.0337 | 97.9666 | 83.5685 | 3142 | 387 | 3228 | 67 | 43 | 64.1791 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 61.8683 | 67.3684 | 57.1984 | 66.9241 | 64 | 31 | 147 | 110 | 43 | 39.0909 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 85.1694 | 82.0755 | 88.5057 | 59.1549 | 87 | 19 | 462 | 60 | 43 | 71.6667 | |
| bgallagher-sentieon | INDEL | I6_15 | HG002complexvar | homalt | 98.2186 | 99.9176 | 96.5764 | 55.7279 | 1213 | 1 | 1213 | 43 | 43 | 100.0000 | |
| astatham-gatk | INDEL | D1_5 | * | hetalt | 97.2343 | 95.0220 | 99.5520 | 63.2355 | 9735 | 510 | 9778 | 44 | 43 | 97.7273 | |
| astatham-gatk | INDEL | D1_5 | HG002complexvar | hetalt | 95.3253 | 93.9349 | 96.7576 | 72.9412 | 1270 | 82 | 1313 | 44 | 43 | 97.7273 | |
| astatham-gatk | SNP | * | map_l125_m1_e0 | * | 91.2465 | 84.0779 | 99.7513 | 74.8310 | 38110 | 7217 | 38104 | 95 | 43 | 45.2632 | |
| astatham-gatk | SNP | * | map_l125_m2_e0 | * | 91.3143 | 84.1877 | 99.7590 | 76.2743 | 39335 | 7388 | 39329 | 95 | 43 | 45.2632 | |
| astatham-gatk | SNP | * | map_l125_m2_e1 | * | 91.3125 | 84.1829 | 99.7615 | 76.3148 | 39736 | 7466 | 39730 | 95 | 43 | 45.2632 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.3254 | 96.9477 | 97.7059 | 65.2032 | 1874 | 59 | 1874 | 44 | 43 | 97.7273 | |