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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
5801-5850 / 86044 show all | |||||||||||||||
| gduggal-bwavard | SNP | ti | map_l250_m0_e0 | * | 86.4567 | 95.9854 | 78.6490 | 94.9013 | 1315 | 55 | 1304 | 354 | 10 | 2.8249 | |
| mlin-fermikit | INDEL | * | map_l100_m2_e1 | * | 75.3445 | 66.1342 | 87.5352 | 80.6829 | 2484 | 1272 | 2486 | 354 | 273 | 77.1186 | |
| jpowers-varprowl | SNP | tv | map_l150_m2_e1 | * | 96.7832 | 96.6528 | 96.9140 | 81.7370 | 11117 | 385 | 11117 | 354 | 92 | 25.9887 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 63.3979 | 87.0324 | 49.8584 | 69.2241 | 349 | 52 | 352 | 354 | 346 | 97.7401 | |
| ckim-dragen | SNP | tv | map_l125_m1_e0 | het | 97.6861 | 98.8149 | 96.5827 | 77.3870 | 10006 | 120 | 10005 | 354 | 25 | 7.0622 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 94.7390 | 98.1567 | 91.5513 | 36.9925 | 3834 | 72 | 3836 | 354 | 36 | 10.1695 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 43.9656 | 31.1283 | 74.8222 | 59.1398 | 1087 | 2405 | 1052 | 354 | 57 | 16.1017 | |
| gduggal-snapvard | INDEL | I16_PLUS | HG002compoundhet | * | 0.9920 | 0.5133 | 14.7343 | 45.8824 | 11 | 2132 | 61 | 353 | 189 | 53.5411 | |
| jpowers-varprowl | SNP | tv | map_l150_m2_e0 | * | 96.7549 | 96.6270 | 96.8830 | 81.7123 | 10972 | 383 | 10972 | 353 | 92 | 26.0623 | |
| eyeh-varpipe | SNP | tv | map_l150_m0_e0 | het | 93.9083 | 99.6483 | 88.7937 | 84.1222 | 2833 | 10 | 2797 | 353 | 7 | 1.9830 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 78.6020 | 69.2502 | 90.8738 | 58.9733 | 4378 | 1944 | 3515 | 353 | 342 | 96.8839 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 78.6020 | 69.2502 | 90.8738 | 58.9733 | 4378 | 1944 | 3515 | 353 | 342 | 96.8839 | |
| ckim-vqsr | INDEL | I6_15 | * | * | 97.6524 | 96.7691 | 98.5520 | 52.9508 | 24021 | 802 | 24026 | 353 | 331 | 93.7677 | |
| egarrison-hhga | INDEL | D6_15 | HG002complexvar | * | 89.5440 | 86.4579 | 92.8586 | 57.3769 | 4584 | 718 | 4590 | 353 | 276 | 78.1870 | |
| ckim-gatk | SNP | tv | map_l125_m2_e0 | het | 87.7913 | 80.8849 | 95.9873 | 88.0575 | 8446 | 1996 | 8444 | 353 | 14 | 3.9660 | |
| ciseli-custom | INDEL | C1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 29.0131 | 33.3333 | 25.6842 | 96.3865 | 1 | 2 | 122 | 353 | 87 | 24.6459 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.3687 | 99.7649 | 97.0110 | 61.9339 | 11457 | 27 | 11457 | 353 | 345 | 97.7337 | |
| raldana-dualsentieon | SNP | * | map_l150_m2_e1 | * | 98.9667 | 99.0283 | 98.9052 | 75.6537 | 31897 | 313 | 31891 | 353 | 12 | 3.3994 | |
| jli-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.5883 | 99.8077 | 99.3700 | 59.7371 | 55524 | 107 | 55520 | 352 | 27 | 7.6705 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.0536 | 99.7374 | 96.4257 | 55.6216 | 9496 | 25 | 9496 | 352 | 346 | 98.2955 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 68.3076 | 76.1255 | 61.9459 | 62.5658 | 558 | 175 | 573 | 352 | 267 | 75.8523 | |
| gduggal-snapvard | INDEL | I16_PLUS | HG002compoundhet | het | 6.6071 | 4.2553 | 14.7700 | 45.8005 | 2 | 45 | 61 | 352 | 188 | 53.4091 | |
| gduggal-snapplat | SNP | ti | HG002complexvar | homalt | 99.0919 | 98.3790 | 99.8152 | 19.4474 | 190328 | 3136 | 190130 | 352 | 203 | 57.6705 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 24.2522 | 20.4082 | 29.8805 | 51.4507 | 150 | 585 | 150 | 352 | 340 | 96.5909 | |
| cchapple-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.1128 | 99.3482 | 98.8786 | 72.9414 | 30940 | 203 | 30949 | 351 | 41 | 11.6809 | |
| cchapple-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.1128 | 99.3482 | 98.8786 | 72.9414 | 30940 | 203 | 30949 | 351 | 41 | 11.6809 | |
| asubramanian-gatk | SNP | * | HG002complexvar | het | 98.3318 | 96.7914 | 99.9221 | 19.0611 | 450561 | 14936 | 450442 | 351 | 31 | 8.8319 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 75.1094 | 82.2222 | 69.1293 | 80.3287 | 592 | 128 | 786 | 351 | 146 | 41.5954 | |
| ltrigg-rtg1 | SNP | * | map_siren | het | 99.2561 | 98.9032 | 99.6115 | 48.6936 | 89992 | 998 | 89996 | 351 | 16 | 4.5584 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 92.8529 | 99.4937 | 87.0432 | 60.7107 | 2358 | 12 | 2358 | 351 | 351 | 100.0000 | |
| gduggal-bwafb | SNP | tv | map_l100_m2_e1 | * | 98.8936 | 99.1694 | 98.6194 | 70.5239 | 25073 | 210 | 25073 | 351 | 56 | 15.9544 | |
| eyeh-varpipe | SNP | tv | HG002compoundhet | * | 97.1567 | 99.0474 | 95.3368 | 45.3099 | 8838 | 85 | 7176 | 351 | 78 | 22.2222 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.4805 | 97.1646 | 97.7985 | 57.9258 | 15592 | 455 | 15593 | 351 | 340 | 96.8661 | |
| rpoplin-dv42 | INDEL | I1_5 | HG002compoundhet | * | 95.3045 | 93.6144 | 97.0566 | 64.5995 | 11567 | 789 | 11574 | 351 | 345 | 98.2906 | |
| mlin-fermikit | SNP | tv | map_siren | het | 80.8694 | 68.7161 | 98.2452 | 51.7745 | 19659 | 8950 | 19651 | 351 | 3 | 0.8547 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.3728 | 99.7562 | 97.0272 | 61.9399 | 11456 | 28 | 11456 | 351 | 343 | 97.7208 | |
| jmaeng-gatk | INDEL | I6_15 | HG002compoundhet | * | 93.8901 | 92.0123 | 95.8462 | 36.5464 | 8075 | 701 | 8076 | 350 | 348 | 99.4286 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 67.0086 | 90.2935 | 53.2710 | 31.8471 | 400 | 43 | 399 | 350 | 337 | 96.2857 | |
| eyeh-varpipe | SNP | ti | HG002compoundhet | het | 95.2908 | 98.8427 | 91.9853 | 54.7039 | 9395 | 110 | 4017 | 350 | 50 | 14.2857 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 49.7630 | 39.5223 | 67.1670 | 73.6334 | 728 | 1114 | 716 | 350 | 286 | 81.7143 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 71.5090 | 85.4985 | 61.4537 | 75.3529 | 566 | 96 | 558 | 350 | 286 | 81.7143 | |
| gduggal-bwavard | SNP | ti | map_l250_m0_e0 | het | 82.1372 | 96.0385 | 71.7514 | 95.4014 | 897 | 37 | 889 | 350 | 7 | 2.0000 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 93.1834 | 98.7146 | 88.2392 | 86.6487 | 2611 | 34 | 2626 | 350 | 41 | 11.7143 | |
| gduggal-bwafb | SNP | tv | map_l100_m2_e0 | * | 98.8866 | 99.1651 | 98.6097 | 70.4745 | 24824 | 209 | 24824 | 350 | 55 | 15.7143 | |
| hfeng-pmm2 | SNP | * | map_l100_m2_e1 | het | 99.3202 | 99.3859 | 99.2545 | 69.6861 | 46610 | 288 | 46599 | 350 | 28 | 8.0000 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 62.0379 | 61.0660 | 63.0412 | 57.2267 | 527 | 336 | 597 | 350 | 266 | 76.0000 | |
| ckim-gatk | SNP | tv | map_l125_m1_e0 | * | 83.4275 | 73.1269 | 97.1059 | 85.2195 | 11712 | 4304 | 11710 | 349 | 14 | 4.0115 | |
| ciseli-custom | INDEL | * | segdup | * | 85.0497 | 84.0767 | 86.0456 | 94.6455 | 2149 | 407 | 2152 | 349 | 240 | 68.7679 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.3899 | 99.7736 | 97.0441 | 62.0464 | 11458 | 26 | 11458 | 349 | 339 | 97.1347 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.0893 | 98.5240 | 97.6583 | 55.6495 | 14552 | 218 | 14555 | 349 | 337 | 96.5616 | |