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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
27701-27750 / 86044 show all | |||||||||||||||
| gduggal-bwafb | SNP | ti | map_l100_m0_e0 | het | 98.5173 | 98.5983 | 98.4365 | 72.6281 | 13787 | 196 | 13788 | 219 | 63 | 28.7671 | |
| gduggal-bwafb | SNP | ti | map_l250_m2_e1 | het | 97.5129 | 97.4538 | 97.5721 | 90.4931 | 3215 | 84 | 3215 | 80 | 23 | 28.7500 | |
| hfeng-pmm1 | SNP | ti | map_l150_m1_e0 | * | 99.3490 | 99.1071 | 99.5921 | 73.5929 | 19536 | 176 | 19532 | 80 | 23 | 28.7500 | |
| jlack-gatk | SNP | * | HG002compoundhet | * | 99.5417 | 99.7018 | 99.3822 | 42.1778 | 25745 | 77 | 25738 | 160 | 46 | 28.7500 | |
| jpowers-varprowl | SNP | * | map_l125_m1_e0 | het | 96.6905 | 96.3687 | 97.0145 | 77.6907 | 27361 | 1031 | 27361 | 842 | 242 | 28.7411 | |
| egarrison-hhga | SNP | ti | segdup | * | 99.6343 | 99.7134 | 99.5554 | 88.9440 | 19481 | 56 | 19481 | 87 | 25 | 28.7356 | |
| ghariani-varprowl | INDEL | * | map_l150_m2_e1 | het | 89.8854 | 97.6190 | 83.2872 | 93.5910 | 902 | 22 | 902 | 181 | 52 | 28.7293 | |
| jpowers-varprowl | SNP | ti | map_l250_m1_e0 | het | 93.7195 | 93.7668 | 93.6722 | 91.9387 | 2783 | 185 | 2783 | 188 | 54 | 28.7234 | |
| jli-custom | SNP | * | map_l125_m1_e0 | het | 99.0623 | 98.7919 | 99.3341 | 68.8001 | 28049 | 343 | 28046 | 188 | 54 | 28.7234 | |
| gduggal-bwaplat | SNP | * | map_l150_m2_e0 | het | 74.3081 | 59.3950 | 99.2206 | 92.2348 | 11958 | 8175 | 11966 | 94 | 27 | 28.7234 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 96.7044 | 99.1299 | 94.3948 | 61.8169 | 1595 | 14 | 1583 | 94 | 27 | 28.7234 | |
| hfeng-pmm1 | SNP | * | map_l100_m0_e0 | * | 99.3989 | 99.1931 | 99.6055 | 67.8013 | 32576 | 265 | 32572 | 129 | 37 | 28.6822 | |
| cchapple-custom | INDEL | * | map_l100_m2_e0 | * | 95.9812 | 96.4527 | 95.5142 | 84.7037 | 3562 | 131 | 3641 | 171 | 49 | 28.6550 | |
| ghariani-varprowl | INDEL | * | map_l150_m1_e0 | * | 90.8174 | 94.2451 | 87.6303 | 95.0045 | 1261 | 77 | 1261 | 178 | 51 | 28.6517 | |
| jpowers-varprowl | SNP | ti | map_l250_m2_e0 | * | 95.5047 | 95.0280 | 95.9863 | 91.4473 | 4759 | 249 | 4759 | 199 | 57 | 28.6432 | |
| cchapple-custom | INDEL | * | map_siren | * | 97.2258 | 97.5978 | 96.8567 | 81.1585 | 7232 | 178 | 7426 | 241 | 69 | 28.6307 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m1_e0 | * | 98.9183 | 98.8798 | 98.9568 | 83.1237 | 1324 | 15 | 1328 | 14 | 4 | 28.5714 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m2_e0 | * | 98.9412 | 98.9035 | 98.9788 | 84.3278 | 1353 | 15 | 1357 | 14 | 4 | 28.5714 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m2_e1 | * | 98.9616 | 98.9247 | 98.9986 | 84.3973 | 1380 | 15 | 1384 | 14 | 4 | 28.5714 | |
| cchapple-custom | INDEL | * | map_l100_m1_e0 | * | 95.9601 | 96.4584 | 95.4668 | 83.7178 | 3459 | 127 | 3538 | 168 | 48 | 28.5714 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 93.3333 | 100.0000 | 87.5000 | 56.9231 | 47 | 0 | 49 | 7 | 2 | 28.5714 | |
| anovak-vg | INDEL | * | map_l100_m1_e0 | het | 70.6925 | 67.2036 | 74.5635 | 86.2608 | 1502 | 733 | 1580 | 539 | 154 | 28.5714 | |
| anovak-vg | INDEL | * | map_l150_m2_e0 | het | 71.4142 | 70.7506 | 72.0905 | 91.6109 | 641 | 265 | 669 | 259 | 74 | 28.5714 | |
| bgallagher-sentieon | INDEL | D16_PLUS | segdup | * | 92.5620 | 96.5517 | 88.8889 | 96.3287 | 56 | 2 | 56 | 7 | 2 | 28.5714 | |
| bgallagher-sentieon | INDEL | D16_PLUS | segdup | het | 90.9091 | 100.0000 | 83.3333 | 96.5742 | 37 | 0 | 35 | 7 | 2 | 28.5714 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | * | 62.6217 | 78.5714 | 52.0548 | 84.3011 | 33 | 9 | 38 | 35 | 10 | 28.5714 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | het | 58.3587 | 75.0000 | 47.7612 | 82.0856 | 27 | 9 | 32 | 35 | 10 | 28.5714 | |
| asubramanian-gatk | INDEL | I1_5 | segdup | * | 98.7667 | 98.2059 | 99.3340 | 95.0336 | 1040 | 19 | 1044 | 7 | 2 | 28.5714 | |
| asubramanian-gatk | SNP | tv | HG002complexvar | het | 98.1875 | 96.4619 | 99.9759 | 22.1458 | 145398 | 5333 | 145329 | 35 | 10 | 28.5714 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.0504 | 98.5724 | 99.5330 | 77.2638 | 1519 | 22 | 1492 | 7 | 2 | 28.5714 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l100_m1_e0 | het | 90.5697 | 95.6522 | 86.0000 | 93.7578 | 44 | 2 | 43 | 7 | 2 | 28.5714 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m1_e0 | * | 98.6079 | 98.0723 | 99.1495 | 84.7395 | 814 | 16 | 816 | 7 | 2 | 28.5714 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m2_e0 | * | 98.5925 | 98.0163 | 99.1755 | 86.0408 | 840 | 17 | 842 | 7 | 2 | 28.5714 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l125_m2_e1 | * | 98.6137 | 98.0460 | 99.1879 | 86.1881 | 853 | 17 | 855 | 7 | 2 | 28.5714 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l150_m1_e0 | * | 98.0147 | 97.4308 | 98.6056 | 88.2104 | 493 | 13 | 495 | 7 | 2 | 28.5714 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l150_m2_e0 | * | 97.9658 | 97.3025 | 98.6381 | 89.4909 | 505 | 14 | 507 | 7 | 2 | 28.5714 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l150_m2_e1 | * | 98.0120 | 97.3635 | 98.6692 | 89.5407 | 517 | 14 | 519 | 7 | 2 | 28.5714 | |
| hfeng-pmm1 | INDEL | I1_5 | map_siren | * | 99.1319 | 98.7354 | 99.5316 | 79.6028 | 2967 | 38 | 2975 | 14 | 4 | 28.5714 | |
| jli-custom | INDEL | * | map_l250_m0_e0 | * | 92.4051 | 93.5897 | 91.2500 | 97.4416 | 73 | 5 | 73 | 7 | 2 | 28.5714 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.5098 | 96.8750 | 98.1530 | 84.0622 | 372 | 12 | 372 | 7 | 2 | 28.5714 | |
| jli-custom | INDEL | D16_PLUS | map_l100_m2_e0 | * | 90.3955 | 88.8889 | 91.9540 | 93.3231 | 80 | 10 | 80 | 7 | 2 | 28.5714 | |
| jli-custom | INDEL | D16_PLUS | map_l100_m2_e1 | * | 90.5263 | 88.6598 | 92.4731 | 93.0337 | 86 | 11 | 86 | 7 | 2 | 28.5714 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.7656 | 91.2621 | 96.4103 | 87.8429 | 188 | 18 | 188 | 7 | 2 | 28.5714 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.1148 | 98.6494 | 99.5846 | 73.9124 | 1680 | 23 | 1678 | 7 | 2 | 28.5714 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l100_m1_e0 | * | 98.8805 | 98.8051 | 98.9560 | 83.1786 | 1323 | 16 | 1327 | 14 | 4 | 28.5714 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l100_m2_e0 | * | 98.9042 | 98.8304 | 98.9781 | 84.3732 | 1352 | 16 | 1356 | 14 | 4 | 28.5714 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l100_m2_e1 | * | 98.9254 | 98.8530 | 98.9979 | 84.4605 | 1379 | 16 | 1383 | 14 | 4 | 28.5714 | |
| hfeng-pmm3 | INDEL | * | map_l250_m1_e0 | * | 96.4286 | 97.3770 | 95.4984 | 94.9050 | 297 | 8 | 297 | 14 | 4 | 28.5714 | |
| hfeng-pmm3 | INDEL | * | map_l250_m2_e0 | * | 96.7066 | 97.5831 | 95.8457 | 95.1946 | 323 | 8 | 323 | 14 | 4 | 28.5714 | |
| hfeng-pmm3 | INDEL | * | map_l250_m2_e1 | * | 96.7262 | 97.5976 | 95.8702 | 95.2904 | 325 | 8 | 325 | 14 | 4 | 28.5714 | |