PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
62851-62900 / 86044 show all | |||||||||||||||
| jli-custom | SNP | tv | map_l100_m1_e0 | homalt | 99.7840 | 99.6351 | 99.9335 | 58.3614 | 9010 | 33 | 9010 | 6 | 5 | 83.3333 | |
| jli-custom | SNP | tv | map_l100_m2_e0 | homalt | 99.7826 | 99.6310 | 99.9347 | 60.9754 | 9180 | 34 | 9180 | 6 | 5 | 83.3333 | |
| jli-custom | SNP | tv | map_l100_m2_e1 | homalt | 99.7847 | 99.6345 | 99.9353 | 60.9647 | 9268 | 34 | 9268 | 6 | 5 | 83.3333 | |
| jli-custom | SNP | tv | map_l125_m1_e0 | homalt | 99.7265 | 99.5563 | 99.8973 | 63.1639 | 5834 | 26 | 5834 | 6 | 5 | 83.3333 | |
| jli-custom | SNP | tv | map_l125_m2_e0 | homalt | 99.7336 | 99.5679 | 99.8999 | 65.8835 | 5991 | 26 | 5991 | 6 | 5 | 83.3333 | |
| jli-custom | SNP | tv | map_l125_m2_e1 | homalt | 99.7361 | 99.5719 | 99.9009 | 65.9064 | 6048 | 26 | 6048 | 6 | 5 | 83.3333 | |
| jli-custom | SNP | tv | map_l250_m0_e0 | * | 96.8085 | 95.1634 | 98.5115 | 89.9973 | 728 | 37 | 728 | 11 | 5 | 45.4545 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.6683 | 99.5308 | 99.8063 | 75.9886 | 3606 | 17 | 3606 | 7 | 5 | 71.4286 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.6443 | 99.5626 | 99.7262 | 54.5715 | 3642 | 16 | 3642 | 10 | 5 | 50.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 95.4191 | 94.1441 | 96.7290 | 64.9180 | 209 | 13 | 207 | 7 | 5 | 71.4286 | |
| jmaeng-gatk | INDEL | * | map_l100_m0_e0 | homalt | 98.3350 | 98.6248 | 98.0469 | 84.7483 | 502 | 7 | 502 | 10 | 5 | 50.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | HG002complexvar | homalt | 98.6254 | 99.3080 | 97.9522 | 75.9046 | 287 | 2 | 287 | 6 | 5 | 83.3333 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.4536 | 99.7807 | 99.1285 | 70.2141 | 910 | 2 | 910 | 8 | 5 | 62.5000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.3707 | 95.3390 | 99.4908 | 31.5202 | 900 | 44 | 977 | 5 | 5 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.2835 | 94.0000 | 98.6807 | 34.4291 | 329 | 21 | 374 | 5 | 5 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.8808 | 96.9816 | 98.7968 | 67.2217 | 739 | 23 | 739 | 9 | 5 | 55.5556 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5131 | 99.4163 | 99.6101 | 78.2596 | 1533 | 9 | 1533 | 6 | 5 | 83.3333 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.8530 | 86.9868 | 99.5675 | 29.4261 | 1123 | 168 | 1151 | 5 | 5 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | map_l100_m0_e0 | * | 95.5921 | 97.9143 | 93.3775 | 89.4196 | 845 | 18 | 846 | 60 | 5 | 8.3333 | |
| jmaeng-gatk | INDEL | D1_5 | map_l150_m1_e0 | * | 95.1391 | 98.0474 | 92.3984 | 92.1292 | 703 | 14 | 705 | 58 | 5 | 8.6207 | |
| jmaeng-gatk | INDEL | D1_5 | map_l150_m2_e0 | * | 95.3628 | 98.1651 | 92.7160 | 92.5428 | 749 | 14 | 751 | 59 | 5 | 8.4746 | |
| jmaeng-gatk | INDEL | D1_5 | map_siren | het | 97.5886 | 99.3412 | 95.8968 | 85.7195 | 2262 | 15 | 2267 | 97 | 5 | 5.1546 | |
| jmaeng-gatk | INDEL | D1_5 | map_siren | homalt | 99.3571 | 99.1438 | 99.5712 | 81.3141 | 1158 | 10 | 1161 | 5 | 5 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.3680 | 95.2153 | 97.5490 | 76.7123 | 199 | 10 | 199 | 5 | 5 | 100.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | * | hetalt | 95.5588 | 91.7541 | 99.6928 | 55.4720 | 1925 | 173 | 1947 | 6 | 5 | 83.3333 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.6093 | 96.3303 | 96.8900 | 85.7581 | 420 | 16 | 405 | 13 | 5 | 38.4615 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 93.1818 | 100.0000 | 87.2340 | 88.0102 | 41 | 0 | 41 | 6 | 5 | 83.3333 | |
| jmaeng-gatk | INDEL | I1_5 | map_l100_m1_e0 | * | 97.7805 | 98.5063 | 97.0653 | 87.3586 | 1319 | 20 | 1323 | 40 | 5 | 12.5000 | |
| jmaeng-gatk | INDEL | I1_5 | map_l100_m2_e0 | * | 97.8271 | 98.5380 | 97.1264 | 88.2650 | 1348 | 20 | 1352 | 40 | 5 | 12.5000 | |
| jmaeng-gatk | INDEL | I1_5 | map_l100_m2_e1 | * | 97.8688 | 98.5663 | 97.1811 | 88.3046 | 1375 | 20 | 1379 | 40 | 5 | 12.5000 | |
| jmaeng-gatk | INDEL | I1_5 | map_siren | het | 97.6442 | 98.3938 | 96.9060 | 85.7250 | 1654 | 27 | 1660 | 53 | 5 | 9.4340 | |
| jmaeng-gatk | INDEL | I6_15 | map_siren | * | 95.2066 | 94.4262 | 96.0000 | 86.3014 | 288 | 17 | 288 | 12 | 5 | 41.6667 | |
| jmaeng-gatk | SNP | * | * | hetalt | 98.6127 | 97.9334 | 99.3015 | 55.2138 | 853 | 18 | 853 | 6 | 5 | 83.3333 | |
| jmaeng-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.2415 | 98.8665 | 99.6193 | 67.1895 | 4710 | 54 | 4710 | 18 | 5 | 27.7778 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7960 | 99.6623 | 99.9299 | 57.3191 | 17119 | 58 | 17115 | 12 | 5 | 41.6667 | |
| jmaeng-gatk | SNP | ti | * | hetalt | 98.5307 | 97.9381 | 99.1304 | 54.1467 | 570 | 12 | 570 | 5 | 5 | 100.0000 | |
| jmaeng-gatk | SNP | ti | HG002compoundhet | homalt | 99.4701 | 99.0127 | 99.9317 | 30.6381 | 7321 | 73 | 7321 | 5 | 5 | 100.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.6389 | 99.6975 | 99.5803 | 59.3397 | 17797 | 54 | 17796 | 75 | 5 | 6.6667 | |
| jmaeng-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8563 | 99.7624 | 99.9504 | 49.5168 | 10078 | 24 | 10078 | 5 | 5 | 100.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.5562 | 99.3991 | 99.7137 | 77.6038 | 6617 | 40 | 6617 | 19 | 5 | 26.3158 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.3974 | 99.2449 | 99.5503 | 79.5805 | 4206 | 32 | 4206 | 19 | 5 | 26.3158 | |
| ltrigg-rtg1 | INDEL | * | segdup | * | 98.6010 | 97.9264 | 99.2849 | 92.9892 | 2503 | 53 | 2499 | 18 | 5 | 27.7778 | |
| ltrigg-rtg1 | INDEL | C1_5 | * | * | 92.5185 | 90.0000 | 95.1819 | 96.3145 | 9 | 1 | 968 | 49 | 5 | 10.2041 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | * | homalt | 98.0769 | 96.5130 | 99.6923 | 55.5890 | 1633 | 59 | 1620 | 5 | 5 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.1018 | 91.5984 | 98.8839 | 61.3793 | 447 | 41 | 443 | 5 | 5 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.4636 | 95.4363 | 99.5788 | 60.7992 | 1192 | 57 | 1182 | 5 | 5 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.4636 | 95.4363 | 99.5788 | 60.7992 | 1192 | 57 | 1182 | 5 | 5 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.6113 | 96.0375 | 99.2375 | 61.0025 | 921 | 38 | 911 | 7 | 5 | 71.4286 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.6407 | 94.7230 | 98.6376 | 55.9424 | 359 | 20 | 362 | 5 | 5 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.6147 | 97.5887 | 99.6624 | 46.5729 | 1457 | 36 | 1476 | 5 | 5 | 100.0000 | |