PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
23401-23450 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | SNP | ti | HG002compoundhet | * | 98.2873 | 96.6987 | 99.9291 | 34.1329 | 16901 | 577 | 16902 | 12 | 8 | 66.6667 | |
| hfeng-pmm1 | SNP | ti | func_cds | * | 99.9384 | 99.9637 | 99.9130 | 21.7209 | 13782 | 5 | 13780 | 12 | 0 | 0.0000 | |
| hfeng-pmm1 | SNP | ti | func_cds | het | 99.9060 | 99.9530 | 99.8590 | 22.2902 | 8500 | 4 | 8498 | 12 | 0 | 0.0000 | |
| hfeng-pmm1 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4265 | 98.9020 | 99.9566 | 52.6521 | 27652 | 307 | 27651 | 12 | 3 | 25.0000 | |
| hfeng-pmm1 | SNP | ti | map_l150_m0_e0 | homalt | 99.6199 | 99.6740 | 99.5658 | 75.8370 | 2752 | 9 | 2752 | 12 | 4 | 33.3333 | |
| hfeng-pmm1 | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4544 | 99.0741 | 99.8377 | 37.0787 | 7383 | 69 | 7380 | 12 | 3 | 25.0000 | |
| hfeng-pmm1 | SNP | tv | map_l100_m0_e0 | homalt | 99.6880 | 99.6880 | 99.6880 | 65.4385 | 3834 | 12 | 3834 | 12 | 4 | 33.3333 | |
| hfeng-pmm1 | SNP | tv | map_l125_m0_e0 | homalt | 99.5050 | 99.5498 | 99.4602 | 72.4501 | 2211 | 10 | 2211 | 12 | 4 | 33.3333 | |
| hfeng-pmm1 | SNP | tv | map_l150_m1_e0 | homalt | 99.7086 | 99.7212 | 99.6960 | 71.8212 | 3935 | 11 | 3935 | 12 | 4 | 33.3333 | |
| hfeng-pmm1 | SNP | tv | map_l150_m2_e0 | homalt | 99.7184 | 99.7306 | 99.7062 | 73.9873 | 4072 | 11 | 4072 | 12 | 4 | 33.3333 | |
| hfeng-pmm1 | SNP | tv | map_l150_m2_e1 | homalt | 99.7219 | 99.7339 | 99.7098 | 73.9872 | 4123 | 11 | 4123 | 12 | 4 | 33.3333 | |
| hfeng-pmm2 | INDEL | * | map_l100_m1_e0 | homalt | 99.1863 | 99.3480 | 99.0252 | 81.8088 | 1219 | 8 | 1219 | 12 | 6 | 50.0000 | |
| hfeng-pmm2 | INDEL | * | map_l250_m0_e0 | * | 90.9091 | 96.1538 | 86.2069 | 97.6404 | 75 | 3 | 75 | 12 | 2 | 16.6667 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.3594 | 99.1723 | 99.5472 | 71.1298 | 2636 | 22 | 2638 | 12 | 6 | 50.0000 | |
| jlack-gatk | INDEL | I6_15 | map_siren | het | 91.9861 | 92.3077 | 91.6667 | 87.8583 | 132 | 11 | 132 | 12 | 1 | 8.3333 | |
| jlack-gatk | SNP | * | * | hetalt | 99.0280 | 99.4259 | 98.6333 | 53.8866 | 866 | 5 | 866 | 12 | 11 | 91.6667 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.8950 | 99.4444 | 98.3516 | 88.4426 | 716 | 4 | 716 | 12 | 3 | 25.0000 | |
| jlack-gatk | SNP | tv | * | hetalt | 99.0280 | 99.4259 | 98.6333 | 53.8866 | 866 | 5 | 866 | 12 | 11 | 91.6667 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8263 | 99.7261 | 99.9268 | 57.6141 | 16384 | 45 | 16382 | 12 | 5 | 41.6667 | |
| jli-custom | INDEL | * | map_l100_m2_e0 | homalt | 99.1284 | 99.2070 | 99.0499 | 83.3333 | 1251 | 10 | 1251 | 12 | 6 | 50.0000 | |
| jli-custom | INDEL | * | map_l100_m2_e1 | homalt | 99.1420 | 99.2194 | 99.0647 | 83.4066 | 1271 | 10 | 1271 | 12 | 6 | 50.0000 | |
| jli-custom | INDEL | * | map_l125_m0_e0 | het | 97.6068 | 97.2743 | 97.9417 | 88.6222 | 571 | 16 | 571 | 12 | 2 | 16.6667 | |
| jmaeng-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.6909 | 99.6293 | 99.7526 | 66.9619 | 4838 | 18 | 4838 | 12 | 9 | 75.0000 | |
| jmaeng-gatk | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6666 | 99.6812 | 99.6520 | 39.8884 | 3439 | 11 | 3436 | 12 | 2 | 16.6667 | |
| jmaeng-gatk | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.6261 | 99.8129 | 99.4400 | 42.7465 | 2134 | 4 | 2131 | 12 | 2 | 16.6667 | |
| jpowers-varprowl | INDEL | * | map_l100_m1_e0 | homalt | 95.3105 | 91.9315 | 98.9474 | 78.3927 | 1128 | 99 | 1128 | 12 | 8 | 66.6667 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 68.8525 | 61.7647 | 77.7778 | 97.8947 | 42 | 26 | 42 | 12 | 11 | 91.6667 | |
| ltrigg-rtg1 | INDEL | * | map_l125_m2_e1 | het | 96.2007 | 93.4659 | 99.1004 | 79.7418 | 1316 | 92 | 1322 | 12 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 95.9246 | 93.0075 | 99.0307 | 72.1673 | 1237 | 93 | 1226 | 12 | 10 | 83.3333 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2720 | 98.6962 | 99.8546 | 54.0539 | 8251 | 109 | 8239 | 12 | 12 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.2825 | 96.1942 | 98.3957 | 66.2911 | 733 | 29 | 736 | 12 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.6442 | 96.0920 | 97.2028 | 69.3571 | 418 | 17 | 417 | 12 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.4853 | 98.2646 | 98.7069 | 72.8496 | 906 | 16 | 916 | 12 | 1 | 8.3333 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.2720 | 98.6962 | 99.8546 | 54.0539 | 8251 | 109 | 8239 | 12 | 12 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | * | homalt | 99.3481 | 98.8935 | 99.8070 | 44.0385 | 6256 | 70 | 6207 | 12 | 9 | 75.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0231 | 98.3802 | 99.6744 | 47.3579 | 3705 | 61 | 3674 | 12 | 9 | 75.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0231 | 98.3802 | 99.6744 | 47.3579 | 3705 | 61 | 3674 | 12 | 9 | 75.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 84.8290 | 78.0488 | 92.8994 | 77.9661 | 160 | 45 | 157 | 12 | 12 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 84.8290 | 78.0488 | 92.8994 | 77.9661 | 160 | 45 | 157 | 12 | 12 | 100.0000 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.4405 | 99.7754 | 99.1078 | 52.4231 | 1333 | 3 | 1333 | 12 | 0 | 0.0000 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.1274 | 99.6491 | 98.6111 | 54.0914 | 852 | 3 | 852 | 12 | 0 | 0.0000 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5635 | 99.6780 | 99.4493 | 63.4150 | 2167 | 7 | 2167 | 12 | 0 | 0.0000 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.3163 | 99.4953 | 99.1379 | 64.1052 | 1380 | 7 | 1380 | 12 | 0 | 0.0000 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.0852 | 99.0155 | 99.1549 | 88.3559 | 1408 | 14 | 1408 | 12 | 6 | 50.0000 | |
| jli-custom | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.6909 | 99.6293 | 99.7526 | 66.4708 | 4838 | 18 | 4838 | 12 | 8 | 66.6667 | |
| jli-custom | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.6439 | 99.6762 | 99.6117 | 68.6485 | 3078 | 10 | 3078 | 12 | 8 | 66.6667 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.0778 | 85.6776 | 99.5114 | 35.1466 | 2333 | 390 | 2444 | 12 | 12 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 94.6822 | 99.3902 | 90.4000 | 87.6847 | 163 | 1 | 113 | 12 | 10 | 83.3333 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 95.3125 | 100.0000 | 91.0448 | 86.9776 | 122 | 0 | 122 | 12 | 11 | 91.6667 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3458 | 99.8122 | 98.8837 | 68.5948 | 1063 | 2 | 1063 | 12 | 12 | 100.0000 | |