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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
551-600 / 86044 show all | |||||||||||||||
| astatham-gatk | INDEL | * | map_l150_m2_e1 | hetalt | 95.4545 | 91.3043 | 100.0000 | 95.3020 | 21 | 2 | 21 | 0 | 0 | ||
| astatham-gatk | INDEL | * | map_l150_m2_e1 | homalt | 98.9858 | 99.1870 | 98.7854 | 89.4512 | 488 | 4 | 488 | 6 | 4 | 66.6667 | |
| astatham-gatk | INDEL | * | map_l250_m0_e0 | * | 90.3614 | 96.1538 | 85.2273 | 97.7873 | 75 | 3 | 75 | 13 | 2 | 15.3846 | |
| astatham-gatk | INDEL | * | map_l250_m0_e0 | het | 88.6957 | 96.2264 | 82.2581 | 97.8268 | 51 | 2 | 51 | 11 | 1 | 9.0909 | |
| astatham-gatk | INDEL | * | map_l250_m0_e0 | hetalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| astatham-gatk | INDEL | * | map_l250_m0_e0 | homalt | 94.1176 | 96.0000 | 92.3077 | 97.4806 | 24 | 1 | 24 | 2 | 1 | 50.0000 | |
| astatham-gatk | INDEL | * | map_l250_m1_e0 | * | 95.1613 | 96.7213 | 93.6508 | 96.0377 | 295 | 10 | 295 | 20 | 4 | 20.0000 | |
| astatham-gatk | INDEL | * | map_l250_m1_e0 | het | 93.5733 | 95.7895 | 91.4573 | 96.4356 | 182 | 8 | 182 | 17 | 2 | 11.7647 | |
| astatham-gatk | INDEL | * | map_l250_m1_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 97.0297 | 6 | 0 | 6 | 0 | 0 | ||
| astatham-gatk | INDEL | * | map_l250_m1_e0 | homalt | 97.7169 | 98.1651 | 97.2727 | 94.9192 | 107 | 2 | 107 | 3 | 2 | 66.6667 | |
| astatham-gatk | INDEL | * | map_l250_m2_e0 | * | 95.3800 | 96.6767 | 94.1176 | 96.2801 | 320 | 11 | 320 | 20 | 4 | 20.0000 | |
| astatham-gatk | INDEL | * | map_l250_m2_e0 | het | 93.9252 | 95.7143 | 92.2018 | 96.5943 | 201 | 9 | 201 | 17 | 2 | 11.7647 | |
| astatham-gatk | INDEL | * | map_l250_m2_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 97.5806 | 6 | 0 | 6 | 0 | 0 | ||
| astatham-gatk | INDEL | * | map_l250_m2_e0 | homalt | 97.8355 | 98.2609 | 97.4138 | 95.3432 | 113 | 2 | 113 | 3 | 2 | 66.6667 | |
| astatham-gatk | INDEL | * | map_l250_m2_e1 | * | 95.4074 | 96.6967 | 94.1520 | 96.3590 | 322 | 11 | 322 | 20 | 4 | 20.0000 | |
| astatham-gatk | INDEL | * | map_l250_m2_e1 | het | 93.9535 | 95.7346 | 92.2374 | 96.6702 | 202 | 9 | 202 | 17 | 2 | 11.7647 | |
| astatham-gatk | INDEL | * | map_l250_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 97.6378 | 6 | 0 | 6 | 0 | 0 | ||
| astatham-gatk | INDEL | * | map_l250_m2_e1 | homalt | 97.8541 | 98.2759 | 97.4359 | 95.4333 | 114 | 2 | 114 | 3 | 2 | 66.6667 | |
| astatham-gatk | INDEL | * | map_siren | * | 97.4708 | 96.1673 | 98.8100 | 83.5327 | 7126 | 284 | 7141 | 86 | 20 | 23.2558 | |
| astatham-gatk | INDEL | * | map_siren | het | 96.3193 | 94.2990 | 98.4281 | 84.3550 | 4251 | 257 | 4258 | 68 | 8 | 11.7647 | |
| astatham-gatk | INDEL | * | map_siren | hetalt | 96.8685 | 93.9271 | 100.0000 | 86.9855 | 232 | 15 | 234 | 0 | 0 | ||
| astatham-gatk | INDEL | * | map_siren | homalt | 99.4364 | 99.5480 | 99.3251 | 81.5279 | 2643 | 12 | 2649 | 18 | 12 | 66.6667 | |
| astatham-gatk | INDEL | * | segdup | * | 98.7115 | 98.8654 | 98.5581 | 94.6872 | 2527 | 29 | 2529 | 37 | 10 | 27.0270 | |
| astatham-gatk | INDEL | * | segdup | het | 98.4019 | 98.7040 | 98.1017 | 95.1947 | 1447 | 19 | 1447 | 28 | 2 | 7.1429 | |
| astatham-gatk | INDEL | * | segdup | hetalt | 96.8254 | 93.8462 | 100.0000 | 94.7122 | 122 | 8 | 124 | 0 | 0 | ||
| astatham-gatk | INDEL | * | segdup | homalt | 99.4292 | 99.7917 | 99.0693 | 93.6623 | 958 | 2 | 958 | 9 | 8 | 88.8889 | |
| astatham-gatk | INDEL | * | segdupwithalt | * | 100.0000 | 100.0000 | 100.0000 | 99.9974 | 1 | 0 | 1 | 0 | 0 | ||
| astatham-gatk | INDEL | * | segdupwithalt | het | 100.0000 | 100.0000 | 100.0000 | 99.9960 | 1 | 0 | 1 | 0 | 0 | ||
| astatham-gatk | INDEL | * | segdupwithalt | hetalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| astatham-gatk | INDEL | * | segdupwithalt | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| astatham-gatk | INDEL | * | tech_badpromoters | * | 99.3377 | 98.6842 | 100.0000 | 55.0898 | 75 | 1 | 75 | 0 | 0 | ||
| astatham-gatk | INDEL | * | tech_badpromoters | het | 98.7013 | 97.4359 | 100.0000 | 53.6585 | 38 | 1 | 38 | 0 | 0 | ||
| astatham-gatk | INDEL | * | tech_badpromoters | hetalt | 100.0000 | 100.0000 | 100.0000 | 50.0000 | 4 | 0 | 4 | 0 | 0 | ||
| astatham-gatk | INDEL | * | tech_badpromoters | homalt | 100.0000 | 100.0000 | 100.0000 | 57.1429 | 33 | 0 | 33 | 0 | 0 | ||
| astatham-gatk | SNP | * | * | * | 99.5934 | 99.2091 | 99.9807 | 19.0428 | 3030461 | 24158 | 3030315 | 584 | 162 | 27.7397 | |
| astatham-gatk | SNP | * | * | het | 99.3521 | 98.7393 | 99.9725 | 20.1637 | 1849967 | 23620 | 1849845 | 508 | 95 | 18.7008 | |
| astatham-gatk | SNP | * | * | hetalt | 99.7699 | 99.5408 | 100.0000 | 40.6164 | 867 | 4 | 867 | 0 | 0 | ||
| astatham-gatk | SNP | * | * | homalt | 99.9742 | 99.9548 | 99.9936 | 17.1971 | 1179627 | 534 | 1179603 | 76 | 67 | 88.1579 | |
| astatham-gatk | SNP | * | HG002complexvar | * | 99.1835 | 98.3938 | 99.9860 | 19.2643 | 742264 | 12117 | 742112 | 104 | 62 | 59.6154 | |
| astatham-gatk | SNP | * | HG002complexvar | het | 98.7010 | 97.4496 | 99.9850 | 18.8713 | 453625 | 11872 | 453498 | 68 | 28 | 41.1765 | |
| astatham-gatk | SNP | * | HG002complexvar | hetalt | 99.6764 | 99.3548 | 100.0000 | 35.9667 | 308 | 2 | 308 | 0 | 0 | ||
| astatham-gatk | SNP | * | HG002complexvar | homalt | 99.9516 | 99.9158 | 99.9875 | 19.8527 | 288331 | 243 | 288306 | 36 | 34 | 94.4444 | |
| astatham-gatk | SNP | * | HG002compoundhet | * | 99.2284 | 98.6058 | 99.8588 | 41.2826 | 25462 | 360 | 25455 | 36 | 34 | 94.4444 | |
| astatham-gatk | SNP | * | HG002compoundhet | het | 98.6981 | 97.5878 | 99.8340 | 46.2177 | 13836 | 342 | 13834 | 23 | 22 | 95.6522 | |
| astatham-gatk | SNP | * | HG002compoundhet | hetalt | 99.7674 | 99.5360 | 100.0000 | 22.4932 | 858 | 4 | 858 | 0 | 0 | ||
| astatham-gatk | SNP | * | HG002compoundhet | homalt | 99.8748 | 99.8702 | 99.8794 | 34.8528 | 10768 | 14 | 10763 | 13 | 12 | 92.3077 | |
| astatham-gatk | SNP | * | decoy | * | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| astatham-gatk | SNP | * | decoy | het | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| astatham-gatk | SNP | * | decoy | hetalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| astatham-gatk | SNP | * | decoy | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||