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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
29551-29600 / 86044 show all | |||||||||||||||
| jli-custom | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.1490 | 92.7126 | 97.7169 | 78.3168 | 229 | 18 | 214 | 5 | 2 | 40.0000 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 95.0935 | 93.2886 | 96.9697 | 75.4647 | 139 | 10 | 128 | 4 | 2 | 50.0000 | |
| jli-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.7888 | 99.9038 | 97.6985 | 41.2693 | 11422 | 11 | 11419 | 269 | 2 | 0.7435 | |
| jli-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9407 | 99.9110 | 99.9703 | 35.3939 | 6739 | 6 | 6739 | 2 | 2 | 100.0000 | |
| jli-custom | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.6647 | 99.7834 | 99.5462 | 33.7248 | 4606 | 10 | 4607 | 21 | 2 | 9.5238 | |
| jli-custom | SNP | * | segdup | het | 99.4076 | 99.8037 | 99.0146 | 89.8653 | 17283 | 34 | 17283 | 172 | 2 | 1.1628 | |
| jli-custom | SNP | * | tech_badpromoters | * | 98.4026 | 98.0892 | 98.7179 | 48.6842 | 154 | 3 | 154 | 2 | 2 | 100.0000 | |
| jli-custom | SNP | * | tech_badpromoters | homalt | 98.1366 | 98.7500 | 97.5309 | 46.7105 | 79 | 1 | 79 | 2 | 2 | 100.0000 | |
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.5057 | 97.2851 | 97.7273 | 90.8676 | 215 | 6 | 215 | 5 | 2 | 40.0000 | |
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.3856 | 98.0263 | 96.7532 | 91.1341 | 149 | 3 | 149 | 5 | 2 | 40.0000 | |
| jli-custom | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8864 | 99.9091 | 99.8638 | 41.8076 | 2199 | 2 | 2199 | 3 | 2 | 66.6667 | |
| jli-custom | SNP | ti | map_l250_m0_e0 | homalt | 99.1945 | 98.8532 | 99.5381 | 89.7296 | 431 | 5 | 431 | 2 | 2 | 100.0000 | |
| jli-custom | SNP | ti | map_l250_m1_e0 | homalt | 99.3746 | 98.8799 | 99.8743 | 84.2895 | 1589 | 18 | 1589 | 2 | 2 | 100.0000 | |
| jli-custom | SNP | ti | map_l250_m2_e0 | homalt | 99.4256 | 98.9708 | 99.8846 | 85.5643 | 1731 | 18 | 1731 | 2 | 2 | 100.0000 | |
| jli-custom | SNP | ti | map_l250_m2_e1 | homalt | 99.4331 | 98.9842 | 99.8861 | 85.6066 | 1754 | 18 | 1754 | 2 | 2 | 100.0000 | |
| jli-custom | SNP | ti | segdup | het | 99.4165 | 99.8504 | 98.9864 | 89.3080 | 12012 | 18 | 12012 | 123 | 2 | 1.6260 | |
| jli-custom | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.2437 | 99.5383 | 98.9508 | 69.9567 | 1509 | 7 | 1509 | 16 | 2 | 12.5000 | |
| jli-custom | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.8967 | 99.3952 | 98.4032 | 71.6308 | 986 | 6 | 986 | 16 | 2 | 12.5000 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.8246 | 99.7050 | 99.9445 | 72.0298 | 5407 | 16 | 5407 | 3 | 2 | 66.6667 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.8852 | 98.1818 | 97.5904 | 90.9635 | 162 | 3 | 162 | 4 | 2 | 50.0000 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.6000 | 98.3871 | 96.8254 | 90.5405 | 122 | 2 | 122 | 4 | 2 | 50.0000 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.8246 | 99.7050 | 99.9445 | 72.0298 | 5407 | 16 | 5407 | 3 | 2 | 66.6667 | |
| jli-custom | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9228 | 99.9228 | 99.9228 | 59.2856 | 3884 | 3 | 3884 | 3 | 2 | 66.6667 | |
| jli-custom | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8912 | 99.8550 | 99.9274 | 36.4538 | 2754 | 4 | 2754 | 2 | 2 | 100.0000 | |
| jli-custom | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6524 | 99.7101 | 99.5947 | 36.6587 | 3440 | 10 | 3440 | 14 | 2 | 14.2857 | |
| jli-custom | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.5097 | 99.6726 | 99.3473 | 37.7178 | 2131 | 7 | 2131 | 14 | 2 | 14.2857 | |
| jli-custom | SNP | tv | map_l250_m0_e0 | het | 96.2433 | 94.0559 | 98.5348 | 89.4472 | 538 | 34 | 538 | 8 | 2 | 25.0000 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 90.6475 | 90.0000 | 91.3043 | 86.0606 | 45 | 5 | 42 | 4 | 2 | 50.0000 | |
| jmaeng-gatk | INDEL | * | map_l125_m0_e0 | het | 94.0273 | 97.6150 | 90.6940 | 93.8779 | 573 | 14 | 575 | 59 | 2 | 3.3898 | |
| jmaeng-gatk | INDEL | * | map_l250_m0_e0 | * | 87.9518 | 93.5897 | 82.9545 | 98.5586 | 73 | 5 | 73 | 15 | 2 | 13.3333 | |
| jmaeng-gatk | INDEL | * | map_l250_m1_e0 | het | 90.5473 | 95.7895 | 85.8491 | 97.7177 | 182 | 8 | 182 | 30 | 2 | 6.6667 | |
| jmaeng-gatk | INDEL | * | map_l250_m1_e0 | homalt | 97.2222 | 96.3303 | 98.1308 | 95.0256 | 105 | 4 | 105 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | * | map_l250_m2_e0 | het | 91.4027 | 96.1905 | 87.0690 | 97.8055 | 202 | 8 | 202 | 30 | 2 | 6.6667 | |
| jmaeng-gatk | INDEL | * | map_l250_m2_e0 | homalt | 97.3684 | 96.5217 | 98.2301 | 95.4673 | 111 | 4 | 111 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | * | map_l250_m2_e1 | het | 91.4414 | 96.2085 | 87.1245 | 97.8577 | 203 | 8 | 203 | 30 | 2 | 6.6667 | |
| jmaeng-gatk | INDEL | * | map_l250_m2_e1 | homalt | 97.3913 | 96.5517 | 98.2456 | 95.5277 | 112 | 4 | 112 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | * | segdup | het | 94.5277 | 98.9768 | 90.4613 | 96.5263 | 1451 | 15 | 1451 | 153 | 2 | 1.3072 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.3890 | 97.1354 | 97.6440 | 85.9662 | 373 | 11 | 373 | 9 | 2 | 22.2222 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.6757 | 99.7835 | 99.5680 | 64.0528 | 461 | 1 | 461 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.3742 | 99.4987 | 99.2500 | 65.9284 | 397 | 2 | 397 | 3 | 2 | 66.6667 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3521 | 100.0000 | 98.7124 | 71.7576 | 230 | 0 | 230 | 3 | 2 | 66.6667 | |
| ckim-gatk | INDEL | D6_15 | map_siren | * | 97.2468 | 97.2495 | 97.2441 | 86.7501 | 495 | 14 | 494 | 14 | 2 | 14.2857 | |
| ckim-gatk | INDEL | D6_15 | map_siren | het | 96.8229 | 98.2143 | 95.4704 | 89.1534 | 275 | 5 | 274 | 13 | 2 | 15.3846 | |
| ckim-gatk | INDEL | I16_PLUS | HG002complexvar | hetalt | 96.6468 | 94.0299 | 99.4135 | 66.8932 | 315 | 20 | 339 | 2 | 2 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | HG002compoundhet | hetalt | 95.8494 | 92.1166 | 99.8975 | 44.7808 | 1928 | 165 | 1950 | 2 | 2 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.0000 | 92.2330 | 97.9381 | 88.2850 | 190 | 16 | 190 | 4 | 2 | 50.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.1538 | 100.0000 | 92.5926 | 92.7224 | 25 | 0 | 25 | 2 | 2 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.3739 | 93.3105 | 99.6454 | 63.1854 | 544 | 39 | 562 | 2 | 2 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.4002 | 93.3232 | 99.6870 | 67.8894 | 615 | 44 | 637 | 2 | 2 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.1212 | 87.3563 | 97.4359 | 84.8544 | 76 | 11 | 76 | 2 | 2 | 100.0000 | |