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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
30451-30500 / 86044 show all | |||||||||||||||
| jlack-gatk | INDEL | I1_5 | map_l150_m1_e0 | het | 93.4527 | 97.3244 | 89.8773 | 93.2797 | 291 | 8 | 293 | 33 | 2 | 6.0606 | |
| jlack-gatk | INDEL | I1_5 | map_l150_m1_e0 | homalt | 98.4925 | 98.9899 | 98.0000 | 87.0718 | 196 | 2 | 196 | 4 | 2 | 50.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l150_m2_e0 | het | 93.2231 | 97.4110 | 89.3805 | 93.8420 | 301 | 8 | 303 | 36 | 2 | 5.5556 | |
| jlack-gatk | INDEL | I1_5 | map_l150_m2_e0 | homalt | 98.5149 | 99.0050 | 98.0296 | 88.4725 | 199 | 2 | 199 | 4 | 2 | 50.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l150_m2_e1 | het | 93.2461 | 97.4763 | 89.3678 | 93.8559 | 309 | 8 | 311 | 37 | 2 | 5.4054 | |
| jlack-gatk | INDEL | I1_5 | map_l150_m2_e1 | homalt | 98.5366 | 99.0196 | 98.0583 | 88.5237 | 202 | 2 | 202 | 4 | 2 | 50.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l250_m1_e0 | * | 92.3077 | 96.2264 | 88.6957 | 97.0805 | 102 | 4 | 102 | 13 | 2 | 15.3846 | |
| jlack-gatk | INDEL | I1_5 | map_l250_m1_e0 | homalt | 96.7033 | 100.0000 | 93.6170 | 94.0806 | 44 | 0 | 44 | 3 | 2 | 66.6667 | |
| jlack-gatk | INDEL | I1_5 | map_l250_m2_e0 | * | 92.7660 | 96.4602 | 89.3443 | 97.3426 | 109 | 4 | 109 | 13 | 2 | 15.3846 | |
| jlack-gatk | INDEL | I1_5 | map_l250_m2_e0 | homalt | 96.7742 | 100.0000 | 93.7500 | 94.8990 | 45 | 0 | 45 | 3 | 2 | 66.6667 | |
| jlack-gatk | INDEL | I1_5 | map_l250_m2_e1 | * | 92.8270 | 96.4912 | 89.4309 | 97.3985 | 110 | 4 | 110 | 13 | 2 | 15.3846 | |
| jlack-gatk | INDEL | I1_5 | map_l250_m2_e1 | homalt | 96.8421 | 100.0000 | 93.8776 | 94.8905 | 46 | 0 | 46 | 3 | 2 | 66.6667 | |
| jlack-gatk | INDEL | I1_5 | segdup | homalt | 99.4709 | 99.3658 | 99.5763 | 92.8690 | 470 | 3 | 470 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.5464 | 97.9339 | 99.1667 | 69.3878 | 237 | 5 | 238 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.5507 | 100.0000 | 97.1429 | 69.2982 | 68 | 0 | 68 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.2126 | 92.7854 | 99.9028 | 33.4520 | 2032 | 158 | 2055 | 2 | 2 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.4292 | 98.1557 | 98.7041 | 82.3820 | 479 | 9 | 457 | 6 | 2 | 33.3333 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.1648 | 92.7160 | 99.8800 | 39.9063 | 1642 | 129 | 1665 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.5984 | 99.3135 | 99.8849 | 60.1010 | 1736 | 12 | 1736 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.3017 | 99.3248 | 99.2786 | 49.2620 | 4266 | 29 | 4266 | 31 | 2 | 6.4516 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.8134 | 99.7514 | 99.8755 | 42.5661 | 1605 | 4 | 1605 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5086 | 99.8706 | 99.1491 | 56.7671 | 6176 | 8 | 6176 | 53 | 2 | 3.7736 | |
| jlack-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.9087 | 99.8904 | 99.9269 | 30.4624 | 2735 | 3 | 2735 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | * | map_l100_m0_e0 | hetalt | 90.9091 | 93.7500 | 88.2353 | 86.7188 | 15 | 1 | 15 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | * | map_l125_m0_e0 | hetalt | 84.2105 | 88.8889 | 80.0000 | 90.9910 | 8 | 1 | 8 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | * | map_l125_m1_e0 | hetalt | 93.3333 | 93.3333 | 93.3333 | 86.7257 | 28 | 2 | 28 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | * | map_l125_m2_e0 | hetalt | 93.3333 | 93.3333 | 93.3333 | 88.6364 | 28 | 2 | 28 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | * | map_l125_m2_e1 | hetalt | 93.3333 | 93.3333 | 93.3333 | 88.6364 | 28 | 2 | 28 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | * | map_l150_m0_e0 | hetalt | 75.0000 | 100.0000 | 60.0000 | 94.7368 | 3 | 0 | 3 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | * | map_l150_m1_e0 | hetalt | 90.0000 | 90.0000 | 90.0000 | 89.5833 | 18 | 2 | 18 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | * | map_l150_m2_e0 | hetalt | 90.0000 | 90.0000 | 90.0000 | 91.0314 | 18 | 2 | 18 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | * | map_l150_m2_e1 | hetalt | 90.0000 | 90.0000 | 90.0000 | 91.0314 | 18 | 2 | 18 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | ti | HG002complexvar | hetalt | 98.7893 | 98.5507 | 99.0291 | 39.5894 | 204 | 3 | 204 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.5082 | 99.1830 | 99.8355 | 58.4841 | 1214 | 10 | 1214 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.3078 | 99.3917 | 99.2240 | 48.4791 | 2941 | 18 | 2941 | 23 | 2 | 8.6957 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.7338 | 99.6454 | 99.8224 | 41.5672 | 1124 | 4 | 1124 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.8949 | 99.9299 | 99.8599 | 26.8443 | 1426 | 1 | 1426 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | ti | map_l100_m0_e0 | hetalt | 89.6552 | 92.8571 | 86.6667 | 82.5581 | 13 | 1 | 13 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | ti | map_l125_m0_e0 | hetalt | 82.3529 | 87.5000 | 77.7778 | 87.5000 | 7 | 1 | 7 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | ti | map_l125_m1_e0 | hetalt | 93.8776 | 95.8333 | 92.0000 | 82.1429 | 23 | 1 | 23 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | ti | map_l125_m2_e0 | hetalt | 93.8776 | 95.8333 | 92.0000 | 84.9398 | 23 | 1 | 23 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | ti | map_l125_m2_e1 | hetalt | 93.8776 | 95.8333 | 92.0000 | 84.9398 | 23 | 1 | 23 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | ti | map_l150_m0_e0 | hetalt | 75.0000 | 100.0000 | 60.0000 | 91.6667 | 3 | 0 | 3 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | ti | map_l150_m1_e0 | hetalt | 90.3226 | 93.3333 | 87.5000 | 86.0870 | 14 | 1 | 14 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | ti | map_l150_m2_e0 | hetalt | 90.3226 | 93.3333 | 87.5000 | 87.8788 | 14 | 1 | 14 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | ti | map_l150_m2_e1 | hetalt | 90.3226 | 93.3333 | 87.5000 | 87.8788 | 14 | 1 | 14 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.9076 | 98.5488 | 99.2691 | 69.3358 | 1494 | 22 | 1494 | 11 | 2 | 18.1818 | |
| jlack-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.4304 | 97.9839 | 98.8810 | 71.7122 | 972 | 20 | 972 | 11 | 2 | 18.1818 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 95.9752 | 93.9394 | 98.1013 | 91.0986 | 155 | 10 | 155 | 3 | 2 | 66.6667 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 95.4733 | 93.5484 | 97.4790 | 90.8672 | 116 | 8 | 116 | 3 | 2 | 66.6667 | |