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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
19251-19300 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | ti | map_l125_m2_e0 | homalt | 99.2423 | 98.5913 | 99.9019 | 66.3888 | 11198 | 160 | 11198 | 11 | 9 | 81.8182 | |
| jlack-gatk | SNP | ti | map_l125_m2_e1 | homalt | 99.2489 | 98.6036 | 99.9027 | 66.4043 | 11298 | 160 | 11298 | 11 | 9 | 81.8182 | |
| jlack-gatk | SNP | tv | HG002compoundhet | homalt | 99.7638 | 99.8229 | 99.7048 | 42.2900 | 3382 | 6 | 3377 | 10 | 9 | 90.0000 | |
| jlack-gatk | SNP | tv | map_l250_m0_e0 | * | 89.3051 | 96.6013 | 83.0337 | 95.8027 | 739 | 26 | 739 | 151 | 9 | 5.9603 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.4343 | 98.6357 | 98.2337 | 71.3284 | 723 | 10 | 723 | 13 | 9 | 69.2308 | |
| jli-custom | INDEL | * | map_l100_m1_e0 | het | 98.3638 | 98.1208 | 98.6080 | 83.1747 | 2193 | 42 | 2196 | 31 | 9 | 29.0323 | |
| jli-custom | INDEL | * | map_l100_m2_e0 | het | 98.3050 | 98.0061 | 98.6057 | 84.0570 | 2261 | 46 | 2263 | 32 | 9 | 28.1250 | |
| jli-custom | INDEL | * | map_l100_m2_e1 | het | 98.3311 | 98.0367 | 98.6272 | 84.1536 | 2297 | 46 | 2299 | 32 | 9 | 28.1250 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.1296 | 90.2834 | 98.3180 | 72.2646 | 669 | 72 | 643 | 11 | 9 | 81.8182 | |
| hfeng-pmm2 | INDEL | D6_15 | HG002complexvar | homalt | 99.4885 | 99.8289 | 99.1504 | 61.5359 | 1167 | 2 | 1167 | 10 | 9 | 90.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 94.7156 | 93.6364 | 95.8199 | 71.7786 | 309 | 21 | 298 | 13 | 9 | 69.2308 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.8361 | 88.2463 | 97.9296 | 62.5291 | 473 | 63 | 473 | 10 | 9 | 90.0000 | |
| hfeng-pmm1 | SNP | * | map_l125_m0_e0 | homalt | 99.6052 | 99.5977 | 99.6126 | 70.8610 | 6685 | 27 | 6685 | 26 | 9 | 34.6154 | |
| hfeng-pmm1 | SNP | * | map_l250_m0_e0 | * | 98.1512 | 98.2201 | 98.0823 | 92.9304 | 2097 | 38 | 2097 | 41 | 9 | 21.9512 | |
| hfeng-pmm1 | SNP | tv | HG002complexvar | het | 99.7636 | 99.5469 | 99.9813 | 20.8221 | 150048 | 683 | 149969 | 28 | 9 | 32.1429 | |
| hfeng-pmm1 | SNP | tv | map_l125_m0_e0 | het | 98.9058 | 98.5912 | 99.2223 | 76.3803 | 4339 | 62 | 4338 | 34 | 9 | 26.4706 | |
| hfeng-pmm2 | SNP | * | map_l250_m0_e0 | * | 97.8575 | 98.4075 | 97.3136 | 93.5175 | 2101 | 34 | 2101 | 58 | 9 | 15.5172 | |
| hfeng-pmm2 | SNP | * | map_l250_m1_e0 | het | 98.0709 | 98.3596 | 97.7838 | 90.2767 | 4677 | 78 | 4677 | 106 | 9 | 8.4906 | |
| hfeng-pmm2 | SNP | ti | map_l125_m1_e0 | homalt | 99.8234 | 99.8189 | 99.8280 | 66.1185 | 11025 | 20 | 11025 | 19 | 9 | 47.3684 | |
| hfeng-pmm2 | SNP | ti | map_l125_m2_e0 | homalt | 99.8283 | 99.8239 | 99.8327 | 68.6045 | 11338 | 20 | 11338 | 19 | 9 | 47.3684 | |
| hfeng-pmm2 | SNP | ti | map_l125_m2_e1 | homalt | 99.8298 | 99.8254 | 99.8342 | 68.6316 | 11438 | 20 | 11438 | 19 | 9 | 47.3684 | |
| hfeng-pmm2 | SNP | ti | map_l250_m1_e0 | * | 98.7163 | 99.0828 | 98.3525 | 89.4985 | 4537 | 42 | 4537 | 76 | 9 | 11.8421 | |
| hfeng-pmm2 | SNP | ti | map_l250_m2_e0 | * | 98.8259 | 99.1613 | 98.4927 | 89.9448 | 4966 | 42 | 4966 | 76 | 9 | 11.8421 | |
| hfeng-pmm2 | SNP | ti | map_l250_m2_e1 | * | 98.8122 | 99.1529 | 98.4739 | 90.0047 | 5033 | 43 | 5033 | 78 | 9 | 11.5385 | |
| hfeng-pmm2 | SNP | ti | segdup | * | 99.6754 | 99.8157 | 99.5355 | 89.6871 | 19501 | 36 | 19499 | 91 | 9 | 9.8901 | |
| hfeng-pmm2 | SNP | ti | segdup | homalt | 99.9201 | 99.9600 | 99.8802 | 88.1936 | 7502 | 3 | 7502 | 9 | 9 | 100.0000 | |
| hfeng-pmm2 | SNP | tv | map_l125_m0_e0 | het | 98.4153 | 98.7957 | 98.0379 | 79.2988 | 4348 | 53 | 4347 | 87 | 9 | 10.3448 | |
| hfeng-pmm2 | SNP | tv | map_siren | homalt | 99.9014 | 99.9014 | 99.9014 | 56.1199 | 17223 | 17 | 17220 | 17 | 9 | 52.9412 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.5833 | 96.4750 | 98.7173 | 74.8085 | 2080 | 76 | 2078 | 27 | 9 | 33.3333 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9159 | 99.9115 | 99.9203 | 55.8220 | 11286 | 10 | 11286 | 9 | 9 | 100.0000 | |
| hfeng-pmm3 | INDEL | * | map_l100_m1_e0 | * | 98.6300 | 98.2989 | 98.9633 | 82.3910 | 3525 | 61 | 3532 | 37 | 9 | 24.3243 | |
| hfeng-pmm3 | INDEL | * | map_l100_m2_e0 | * | 98.6017 | 98.2670 | 98.9388 | 83.3913 | 3629 | 64 | 3636 | 39 | 9 | 23.0769 | |
| hfeng-pmm3 | INDEL | * | map_l100_m2_e1 | * | 98.5982 | 98.2428 | 98.9561 | 83.4763 | 3690 | 66 | 3697 | 39 | 9 | 23.0769 | |
| hfeng-pmm3 | INDEL | * | map_siren | homalt | 99.4733 | 99.4727 | 99.4739 | 78.7290 | 2641 | 14 | 2647 | 14 | 9 | 64.2857 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.4016 | 92.2695 | 98.7539 | 72.0200 | 1301 | 109 | 1268 | 16 | 9 | 56.2500 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.0246 | 94.2424 | 95.8199 | 71.5462 | 311 | 19 | 298 | 13 | 9 | 69.2308 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 96.4427 | 100.0000 | 93.1298 | 85.5088 | 122 | 0 | 122 | 9 | 9 | 100.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.0406 | 95.3595 | 98.7821 | 83.5045 | 1459 | 71 | 1460 | 18 | 9 | 50.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.0406 | 95.3595 | 98.7821 | 83.5045 | 1459 | 71 | 1460 | 18 | 9 | 50.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.9204 | 87.9187 | 98.5255 | 66.5471 | 735 | 101 | 735 | 11 | 9 | 81.8182 | |
| hfeng-pmm3 | SNP | * | map_l125_m0_e0 | het | 99.1347 | 99.0682 | 99.2012 | 76.1218 | 12546 | 118 | 12543 | 101 | 9 | 8.9109 | |
| hfeng-pmm3 | SNP | * | map_l125_m0_e0 | homalt | 99.5977 | 99.5828 | 99.6125 | 70.7306 | 6684 | 28 | 6684 | 26 | 9 | 34.6154 | |
| hfeng-pmm3 | SNP | * | map_l150_m0_e0 | * | 99.1727 | 99.1439 | 99.2015 | 79.7142 | 11929 | 103 | 11926 | 96 | 9 | 9.3750 | |
| hfeng-pmm3 | SNP | * | map_l250_m1_e0 | * | 98.9535 | 98.8507 | 99.0565 | 88.1658 | 7139 | 83 | 7139 | 68 | 9 | 13.2353 | |
| hfeng-pmm3 | SNP | * | map_l250_m2_e0 | * | 99.0163 | 98.9347 | 99.0981 | 88.6629 | 7801 | 84 | 7801 | 71 | 9 | 12.6761 | |
| hfeng-pmm3 | SNP | * | map_l250_m2_e1 | * | 99.0226 | 98.9358 | 99.1095 | 88.7342 | 7902 | 85 | 7902 | 71 | 9 | 12.6761 | |
| hfeng-pmm3 | SNP | ti | map_l100_m1_e0 | het | 99.5602 | 99.4256 | 99.6952 | 64.3351 | 29770 | 172 | 29763 | 91 | 9 | 9.8901 | |
| hfeng-pmm3 | SNP | ti | map_l100_m2_e0 | het | 99.5618 | 99.4285 | 99.6954 | 65.7218 | 30447 | 175 | 30440 | 93 | 9 | 9.6774 | |
| hfeng-pmm3 | SNP | ti | map_l100_m2_e1 | het | 99.5633 | 99.4315 | 99.6955 | 65.7255 | 30784 | 176 | 30777 | 94 | 9 | 9.5745 | |
| hfeng-pmm3 | SNP | tv | HG002complexvar | homalt | 99.9769 | 99.9643 | 99.9895 | 22.8756 | 95077 | 34 | 95069 | 10 | 9 | 90.0000 | |