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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
17701-17750 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | INDEL | * | map_l150_m1_e0 | * | 98.2484 | 98.3558 | 98.1413 | 87.8949 | 1316 | 22 | 1320 | 25 | 6 | 24.0000 | |
| hfeng-pmm3 | INDEL | * | map_l150_m1_e0 | het | 97.9024 | 98.0117 | 97.7933 | 88.3397 | 838 | 17 | 842 | 19 | 3 | 15.7895 | |
| hfeng-pmm3 | INDEL | * | map_l150_m1_e0 | hetalt | 97.5610 | 95.2381 | 100.0000 | 94.4904 | 20 | 1 | 20 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | * | map_l150_m1_e0 | homalt | 98.9201 | 99.1342 | 98.7069 | 86.2069 | 458 | 4 | 458 | 6 | 3 | 50.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | map_l150_m1_e0 | * | 89.3617 | 84.0000 | 95.4545 | 94.7991 | 21 | 4 | 21 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | map_l150_m1_e0 | het | 85.7143 | 80.0000 | 92.3077 | 94.9416 | 12 | 3 | 12 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | map_l150_m1_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 93.0233 | 3 | 0 | 3 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | I6_15 | map_l150_m1_e0 | homalt | 92.3077 | 85.7143 | 100.0000 | 95.1220 | 6 | 1 | 6 | 0 | 0 | ||
| hfeng-pmm2 | SNP | ti | map_l150_m1_e0 | * | 99.2981 | 99.4065 | 99.1899 | 76.2408 | 19595 | 117 | 19591 | 160 | 20 | 12.5000 | |
| hfeng-pmm2 | SNP | ti | map_l150_m1_e0 | het | 99.0031 | 99.1673 | 98.8394 | 78.5331 | 12267 | 103 | 12263 | 144 | 13 | 9.0278 | |
| hfeng-pmm2 | SNP | ti | map_l150_m1_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 76.5625 | 15 | 0 | 15 | 0 | 0 | ||
| hfeng-pmm2 | SNP | ti | map_l150_m1_e0 | homalt | 99.7953 | 99.8089 | 99.7817 | 70.9972 | 7313 | 14 | 7313 | 16 | 7 | 43.7500 | |
| jlack-gatk | INDEL | I1_5 | map_l150_m1_e0 | * | 95.4901 | 98.0237 | 93.0841 | 91.9135 | 496 | 10 | 498 | 37 | 4 | 10.8108 | |
| 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 | hetalt | 100.0000 | 100.0000 | 100.0000 | 95.8716 | 9 | 0 | 9 | 0 | 0 | ||
| 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 | SNP | ti | map_l150_m1_e0 | * | 96.1043 | 98.6353 | 93.7000 | 82.0564 | 19443 | 269 | 19439 | 1307 | 125 | 9.5639 | |
| jlack-gatk | SNP | ti | map_l150_m1_e0 | het | 94.4532 | 98.8682 | 90.4156 | 85.3425 | 12230 | 140 | 12226 | 1296 | 116 | 8.9506 | |
| 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_m1_e0 | homalt | 99.0574 | 98.2530 | 99.8751 | 68.9978 | 7199 | 128 | 7199 | 9 | 7 | 77.7778 | |
| jlack-gatk | SNP | tv | map_l150_m1_e0 | * | 94.3885 | 98.6712 | 90.4622 | 83.2378 | 10767 | 145 | 10765 | 1135 | 67 | 5.9031 | |
| jlack-gatk | SNP | tv | map_l150_m1_e0 | het | 91.9297 | 98.8339 | 85.9271 | 86.1869 | 6865 | 81 | 6863 | 1124 | 59 | 5.2491 | |
| jlack-gatk | SNP | tv | map_l150_m1_e0 | hetalt | 90.0000 | 90.0000 | 90.0000 | 89.5833 | 18 | 2 | 18 | 2 | 2 | 100.0000 | |
| jlack-gatk | SNP | tv | map_l150_m1_e0 | homalt | 99.0943 | 98.4288 | 99.7688 | 70.0054 | 3884 | 62 | 3884 | 9 | 6 | 66.6667 | |
| jli-custom | INDEL | * | map_l150_m1_e0 | * | 98.3164 | 98.1315 | 98.5019 | 88.5230 | 1313 | 25 | 1315 | 20 | 7 | 35.0000 | |
| jli-custom | INDEL | * | map_l150_m1_e0 | het | 98.1285 | 98.0117 | 98.2456 | 88.8001 | 838 | 17 | 840 | 15 | 4 | 26.6667 | |
| jli-custom | INDEL | * | map_l150_m1_e0 | hetalt | 92.3077 | 85.7143 | 100.0000 | 95.2255 | 18 | 3 | 18 | 0 | 0 | ||
| jli-custom | INDEL | * | map_l150_m1_e0 | homalt | 98.9177 | 98.9177 | 98.9177 | 87.2411 | 457 | 5 | 457 | 5 | 3 | 60.0000 | |
| jlack-gatk | SNP | * | map_l150_m1_e0 | * | 95.4882 | 98.6507 | 92.5222 | 82.5036 | 30196 | 413 | 30190 | 2440 | 190 | 7.7869 | |
| jlack-gatk | SNP | * | map_l150_m1_e0 | het | 93.5301 | 98.8559 | 88.7489 | 85.6678 | 19095 | 221 | 19089 | 2420 | 175 | 7.2314 | |
| 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_m1_e0 | homalt | 99.0703 | 98.3146 | 99.8379 | 69.3588 | 11083 | 190 | 11083 | 18 | 13 | 72.2222 | |
| jlack-gatk | INDEL | D6_15 | map_l150_m1_e0 | * | 93.4211 | 97.2603 | 89.8734 | 93.5668 | 71 | 2 | 71 | 8 | 0 | 0.0000 | |
| jlack-gatk | INDEL | D6_15 | map_l150_m1_e0 | het | 90.4762 | 97.4359 | 84.4444 | 95.1665 | 38 | 1 | 38 | 7 | 0 | 0.0000 | |
| jlack-gatk | INDEL | D6_15 | map_l150_m1_e0 | hetalt | 87.5000 | 87.5000 | 87.5000 | 90.6977 | 7 | 1 | 7 | 1 | 0 | 0.0000 | |
| jlack-gatk | INDEL | D6_15 | map_l150_m1_e0 | homalt | 100.0000 | 100.0000 | 100.0000 | 87.6777 | 26 | 0 | 26 | 0 | 0 | ||
| jlack-gatk | INDEL | I16_PLUS | map_l150_m1_e0 | * | 85.7143 | 81.8182 | 90.0000 | 97.7679 | 9 | 2 | 9 | 1 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I16_PLUS | map_l150_m1_e0 | het | 92.3077 | 100.0000 | 85.7143 | 97.2973 | 6 | 0 | 6 | 1 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I16_PLUS | map_l150_m1_e0 | hetalt | 66.6667 | 50.0000 | 100.0000 | 93.3333 | 1 | 1 | 1 | 0 | 0 | ||
| jlack-gatk | INDEL | I16_PLUS | map_l150_m1_e0 | homalt | 80.0000 | 66.6667 | 100.0000 | 98.8506 | 2 | 1 | 2 | 0 | 0 | ||
| jlack-gatk | INDEL | I6_15 | map_l150_m1_e0 | * | 86.2745 | 88.0000 | 84.6154 | 95.7861 | 22 | 3 | 22 | 4 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I6_15 | map_l150_m1_e0 | het | 80.0000 | 80.0000 | 80.0000 | 96.4539 | 12 | 3 | 12 | 3 | 0 | 0.0000 | |
| jlack-gatk | INDEL | I6_15 | map_l150_m1_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 93.3333 | 3 | 0 | 3 | 0 | 0 | ||
| jlack-gatk | INDEL | I6_15 | map_l150_m1_e0 | homalt | 93.3333 | 100.0000 | 87.5000 | 94.6309 | 7 | 0 | 7 | 1 | 0 | 0.0000 | |
| jli-custom | INDEL | C6_15 | map_l150_m1_e0 | * | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jli-custom | INDEL | C6_15 | map_l150_m1_e0 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jli-custom | INDEL | C6_15 | map_l150_m1_e0 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jli-custom | INDEL | C6_15 | map_l150_m1_e0 | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| jli-custom | INDEL | D6_15 | map_l150_m1_e0 | * | 99.3103 | 98.6301 | 100.0000 | 91.1001 | 72 | 1 | 72 | 0 | 0 | ||
| jli-custom | INDEL | D6_15 | map_l150_m1_e0 | het | 100.0000 | 100.0000 | 100.0000 | 92.4272 | 39 | 0 | 39 | 0 | 0 | ||