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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
4651-4700 / 86044 show all | |||||||||||||||
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.0495 | 96.4138 | 99.7416 | 53.4125 | 16561 | 616 | 16599 | 43 | 38 | 88.3721 | |
| dgrover-gatk | SNP | tv | map_l125_m2_e1 | * | 99.2530 | 99.3156 | 99.1905 | 74.7864 | 16543 | 114 | 16541 | 135 | 27 | 20.0000 | |
| hfeng-pmm1 | SNP | tv | map_l125_m2_e1 | * | 99.4888 | 99.3156 | 99.6626 | 71.0607 | 16543 | 114 | 16541 | 56 | 16 | 28.5714 | |
| ckim-isaac | SNP | * | map_l150_m1_e0 | * | 70.0877 | 54.0364 | 99.7046 | 76.2708 | 16540 | 14069 | 16541 | 49 | 12 | 24.4898 | |
| raldana-dualsentieon | SNP | tv | map_l125_m2_e1 | * | 99.2171 | 99.2976 | 99.1368 | 71.9418 | 16540 | 117 | 16538 | 144 | 4 | 2.7778 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.0342 | 97.2312 | 98.8506 | 67.1730 | 16505 | 470 | 16513 | 192 | 4 | 2.0833 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.0342 | 97.2312 | 98.8506 | 67.1730 | 16505 | 470 | 16513 | 192 | 4 | 2.0833 | |
| jli-custom | SNP | tv | map_l125_m2_e1 | * | 99.2722 | 99.0875 | 99.4576 | 69.1406 | 16505 | 152 | 16504 | 90 | 26 | 28.8889 | |
| ckim-dragen | SNP | tv | map_l125_m2_e1 | * | 98.4134 | 99.0575 | 97.7776 | 75.6170 | 16500 | 157 | 16499 | 375 | 39 | 10.4000 | |
| egarrison-hhga | SNP | tv | map_l125_m2_e1 | * | 99.4064 | 99.0334 | 99.7822 | 70.1626 | 16496 | 161 | 16496 | 36 | 17 | 47.2222 | |
| rpoplin-dv42 | SNP | tv | map_l125_m2_e1 | * | 99.1554 | 99.0274 | 99.2837 | 70.9387 | 16495 | 162 | 16493 | 119 | 70 | 58.8235 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 83.8931 | 74.1034 | 96.6631 | 64.8282 | 16488 | 5762 | 16483 | 569 | 336 | 59.0510 | |
| gduggal-bwavard | SNP | * | map_l125_m1_e0 | homalt | 98.6701 | 97.5096 | 99.8585 | 66.2879 | 16484 | 421 | 16234 | 23 | 18 | 78.2609 | |
| gduggal-bwafb | SNP | tv | map_l125_m2_e1 | * | 98.6792 | 98.9014 | 98.4580 | 74.8361 | 16474 | 183 | 16474 | 258 | 51 | 19.7674 | |
| jlack-gatk | SNP | tv | map_l125_m2_e1 | * | 95.1831 | 98.8894 | 91.7447 | 81.3088 | 16472 | 185 | 16470 | 1482 | 91 | 6.1404 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 90.5655 | 92.3733 | 88.8270 | 56.6366 | 16460 | 1359 | 15479 | 1947 | 1601 | 82.2291 | |
| eyeh-varpipe | SNP | tv | map_l125_m2_e0 | * | 97.8880 | 99.7574 | 96.0874 | 75.4411 | 16449 | 40 | 16356 | 666 | 17 | 2.5526 | |
| ghariani-varprowl | SNP | tv | map_l125_m2_e1 | * | 97.4430 | 98.7213 | 96.1975 | 78.1381 | 16444 | 213 | 16444 | 650 | 118 | 18.1538 | |
| ckim-gatk | SNP | * | map_l100_m0_e0 | het | 86.1308 | 77.5383 | 96.8651 | 86.4108 | 16442 | 4763 | 16438 | 532 | 46 | 8.6466 | |
| ckim-isaac | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.3802 | 93.5166 | 99.4246 | 60.9201 | 16429 | 1139 | 16588 | 96 | 15 | 15.6250 | |
| anovak-vg | SNP | ti | map_l125_m1_e0 | het | 77.2287 | 89.8883 | 67.6948 | 76.8145 | 16419 | 1847 | 16307 | 7782 | 1697 | 21.8067 | |
| jmaeng-gatk | SNP | * | map_l100_m0_e0 | het | 85.9916 | 77.4251 | 96.6894 | 86.7577 | 16418 | 4787 | 16414 | 562 | 45 | 8.0071 | |
| ndellapenna-hhga | SNP | tv | map_l125_m2_e1 | * | 99.1365 | 98.5592 | 99.7206 | 69.3660 | 16417 | 240 | 16417 | 46 | 22 | 47.8261 | |
| ltrigg-rtg1 | SNP | tv | map_l125_m2_e1 | * | 99.1333 | 98.5291 | 99.7448 | 64.3814 | 16412 | 245 | 16417 | 42 | 9 | 21.4286 | |
| bgallagher-sentieon | SNP | tv | map_l125_m2_e0 | * | 99.1716 | 99.4784 | 98.8667 | 73.4826 | 16403 | 86 | 16401 | 188 | 28 | 14.8936 | |
| hfeng-pmm3 | SNP | tv | map_l125_m2_e0 | * | 99.5176 | 99.4724 | 99.5629 | 71.4177 | 16402 | 87 | 16400 | 72 | 10 | 13.8889 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8660 | 99.8235 | 99.9086 | 58.4519 | 16400 | 29 | 16399 | 15 | 4 | 26.6667 | |
| hfeng-pmm2 | SNP | tv | map_l125_m2_e0 | * | 99.2975 | 99.4481 | 99.1474 | 73.9287 | 16398 | 91 | 16396 | 141 | 16 | 11.3475 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8174 | 99.8052 | 99.8295 | 60.0496 | 16397 | 32 | 16396 | 28 | 4 | 14.2857 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8508 | 99.7870 | 99.9147 | 58.6642 | 16394 | 35 | 16393 | 14 | 4 | 28.5714 | |
| ckim-dragen | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7838 | 99.7565 | 99.8111 | 59.5001 | 16389 | 40 | 16384 | 31 | 5 | 16.1290 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6624 | 99.7383 | 99.5867 | 60.0529 | 16386 | 43 | 16385 | 68 | 18 | 26.4706 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8263 | 99.7261 | 99.9268 | 57.6141 | 16384 | 45 | 16382 | 12 | 5 | 41.6667 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7777 | 99.7261 | 99.8294 | 60.1055 | 16384 | 45 | 16383 | 28 | 4 | 14.2857 | |
| gduggal-bwaplat | SNP | * | map_l100_m1_e0 | homalt | 75.5140 | 60.6673 | 99.9817 | 70.3269 | 16382 | 10621 | 16370 | 3 | 3 | 100.0000 | |
| ghariani-varprowl | SNP | ti | HG002compoundhet | * | 88.8369 | 93.7235 | 84.4347 | 48.3203 | 16381 | 1097 | 16496 | 3041 | 899 | 29.5626 | |
| hfeng-pmm1 | SNP | tv | map_l125_m2_e0 | * | 99.4866 | 99.3147 | 99.6592 | 71.0071 | 16376 | 113 | 16374 | 56 | 16 | 28.5714 | |
| dgrover-gatk | SNP | tv | map_l125_m2_e0 | * | 99.2454 | 99.3086 | 99.1822 | 74.7468 | 16375 | 114 | 16373 | 135 | 27 | 20.0000 | |
| raldana-dualsentieon | SNP | tv | map_l125_m2_e0 | * | 99.2122 | 99.2904 | 99.1340 | 71.8789 | 16372 | 117 | 16370 | 143 | 4 | 2.7972 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7077 | 99.6531 | 99.7624 | 58.0995 | 16372 | 57 | 16373 | 39 | 28 | 71.7949 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7775 | 99.6287 | 99.9267 | 58.5881 | 16368 | 61 | 16366 | 12 | 1 | 8.3333 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7592 | 99.5922 | 99.9267 | 60.1242 | 16362 | 67 | 16361 | 12 | 1 | 8.3333 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7040 | 99.5496 | 99.8589 | 54.8699 | 16355 | 74 | 16278 | 23 | 8 | 34.7826 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7438 | 99.5435 | 99.9450 | 57.4906 | 16354 | 75 | 16352 | 9 | 2 | 22.2222 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7347 | 99.5374 | 99.9328 | 57.9303 | 16353 | 76 | 16352 | 11 | 4 | 36.3636 | |
| cchapple-custom | SNP | * | map_l125_m1_e0 | homalt | 98.3281 | 96.7169 | 99.9939 | 61.4654 | 16350 | 555 | 16345 | 1 | 1 | 100.0000 | |
| ltrigg-rtg2 | SNP | tv | map_l125_m2_e1 | * | 98.9559 | 98.1449 | 99.7803 | 61.1285 | 16348 | 309 | 16353 | 36 | 5 | 13.8889 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 90.6005 | 89.5230 | 91.7043 | 43.8461 | 16346 | 1913 | 17079 | 1545 | 1043 | 67.5081 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 97.3750 | 99.4887 | 95.3492 | 61.3437 | 16345 | 84 | 16381 | 799 | 639 | 79.9750 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6346 | 99.4826 | 99.7870 | 59.5165 | 16344 | 85 | 17330 | 37 | 22 | 59.4595 | |