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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
80651-80700 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | INDEL | I6_15 | HG002compoundhet | * | 93.3379 | 91.5109 | 95.2392 | 35.4681 | 8031 | 745 | 8042 | 402 | 334 | 83.0846 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 78.5716 | 74.3137 | 83.3471 | 67.6060 | 1137 | 393 | 2012 | 402 | 245 | 60.9453 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 78.5716 | 74.3137 | 83.3471 | 67.6060 | 1137 | 393 | 2012 | 402 | 245 | 60.9453 | |
| ciseli-custom | SNP | * | map_l250_m0_e0 | het | 62.5646 | 57.7025 | 68.3215 | 96.1752 | 869 | 637 | 867 | 402 | 13 | 3.2338 | |
| cchapple-custom | SNP | ti | map_l125_m0_e0 | * | 96.3333 | 95.8549 | 96.8166 | 76.6174 | 12233 | 529 | 12226 | 402 | 120 | 29.8507 | |
| gduggal-bwafb | SNP | * | map_l150_m2_e0 | het | 98.2282 | 98.4453 | 98.0121 | 79.6044 | 19820 | 313 | 19820 | 402 | 96 | 23.8806 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 96.2176 | 99.5759 | 93.0785 | 81.7232 | 5400 | 23 | 5406 | 402 | 172 | 42.7861 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 96.2176 | 99.5759 | 93.0785 | 81.7232 | 5400 | 23 | 5406 | 402 | 172 | 42.7861 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.8288 | 98.4539 | 97.2116 | 67.2453 | 14391 | 226 | 14015 | 402 | 380 | 94.5274 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 94.7282 | 99.1860 | 90.6540 | 71.0721 | 3899 | 32 | 3909 | 403 | 1 | 0.2481 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 67.0378 | 96.3964 | 51.3872 | 89.5473 | 428 | 16 | 426 | 403 | 27 | 6.6998 | |
| bgallagher-sentieon | SNP | * | map_l125_m2_e0 | het | 99.0076 | 99.3826 | 98.6355 | 75.8378 | 29137 | 181 | 29131 | 403 | 55 | 13.6476 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 95.9278 | 99.0227 | 93.0204 | 76.6292 | 5370 | 53 | 5371 | 403 | 345 | 85.6079 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 95.9278 | 99.0227 | 93.0204 | 76.6292 | 5370 | 53 | 5371 | 403 | 345 | 85.6079 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 88.5602 | 98.1043 | 80.7085 | 72.3823 | 1656 | 32 | 1686 | 403 | 136 | 33.7469 | |
| cchapple-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2564 | 99.6414 | 98.8744 | 60.9154 | 35292 | 127 | 35487 | 404 | 50 | 12.3762 | |
| gduggal-snapfb | SNP | * | map_l250_m2_e0 | * | 94.6894 | 94.5212 | 94.8581 | 89.8978 | 7453 | 432 | 7453 | 404 | 182 | 45.0495 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.0815 | 99.5612 | 98.6064 | 70.5927 | 28586 | 126 | 28586 | 404 | 25 | 6.1881 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.0815 | 99.5612 | 98.6064 | 70.5927 | 28586 | 126 | 28586 | 404 | 25 | 6.1881 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.7459 | 99.6917 | 97.8179 | 67.5313 | 18110 | 56 | 18110 | 404 | 391 | 96.7822 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.7459 | 99.6917 | 97.8179 | 67.5313 | 18110 | 56 | 18110 | 404 | 391 | 96.7822 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.3320 | 98.9618 | 97.7101 | 71.4422 | 17634 | 185 | 17239 | 404 | 355 | 87.8713 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.1229 | 98.2424 | 90.3349 | 66.0632 | 3801 | 68 | 3776 | 404 | 398 | 98.5149 | |
| mlin-fermikit | INDEL | D6_15 | HG002complexvar | * | 90.8139 | 89.4568 | 92.2128 | 58.0463 | 4743 | 559 | 4784 | 404 | 381 | 94.3069 | |
| mlin-fermikit | SNP | ti | map_siren | het | 83.4382 | 72.0464 | 99.1091 | 46.3223 | 44944 | 17438 | 44944 | 404 | 15 | 3.7129 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 75.3642 | 66.6334 | 86.7280 | 50.6405 | 9350 | 4682 | 2640 | 404 | 232 | 57.4257 | |
| bgallagher-sentieon | SNP | * | map_l125_m2_e1 | het | 99.0167 | 99.3893 | 98.6469 | 75.8815 | 29459 | 181 | 29453 | 404 | 55 | 13.6139 | |
| ciseli-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 96.7305 | 99.3032 | 94.2877 | 46.8635 | 6698 | 47 | 6685 | 405 | 129 | 31.8519 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.6511 | 96.9845 | 98.3269 | 41.1237 | 23800 | 740 | 23802 | 405 | 370 | 91.3580 | |
| gduggal-bwafb | SNP | * | map_l150_m2_e1 | het | 98.2410 | 98.4629 | 98.0200 | 79.6828 | 20050 | 313 | 20050 | 405 | 97 | 23.9506 | |
| gduggal-bwafb | SNP | * | map_l150_m1_e0 | * | 98.6339 | 98.5952 | 98.6726 | 76.5153 | 30179 | 430 | 30179 | 406 | 107 | 26.3547 | |
| ckim-gatk | SNP | ti | map_l125_m1_e0 | * | 84.6397 | 74.3855 | 98.1731 | 83.5274 | 21821 | 7514 | 21817 | 406 | 44 | 10.8374 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.6346 | 96.2423 | 97.0302 | 52.9948 | 13267 | 518 | 13265 | 406 | 403 | 99.2611 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.7571 | 99.7248 | 97.8080 | 67.5218 | 18116 | 50 | 18116 | 406 | 393 | 96.7980 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.7571 | 99.7248 | 97.8080 | 67.5218 | 18116 | 50 | 18116 | 406 | 393 | 96.7980 | |
| bgallagher-sentieon | INDEL | D6_15 | HG002compoundhet | * | 94.8572 | 94.2753 | 95.4464 | 36.1821 | 8514 | 517 | 8510 | 406 | 403 | 99.2611 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 10.5727 | 87.5855 | 0 | 0 | 48 | 406 | 22 | 5.4187 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 83.6630 | 95.0637 | 74.7040 | 77.8987 | 1194 | 62 | 1199 | 406 | 377 | 92.8571 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.7709 | 99.7523 | 97.8086 | 67.6045 | 18121 | 45 | 18121 | 406 | 388 | 95.5665 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.7709 | 99.7523 | 97.8086 | 67.6045 | 18121 | 45 | 18121 | 406 | 388 | 95.5665 | |
| jpowers-varprowl | SNP | tv | map_l125_m2_e0 | het | 96.3204 | 96.5141 | 96.1274 | 80.0949 | 10078 | 364 | 10078 | 406 | 94 | 23.1527 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.8172 | 98.5296 | 99.1064 | 71.0184 | 45030 | 672 | 45029 | 406 | 140 | 34.4828 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.8172 | 98.5296 | 99.1064 | 71.0184 | 45030 | 672 | 45029 | 406 | 140 | 34.4828 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.2627 | 95.4437 | 97.0959 | 63.8638 | 13951 | 666 | 13574 | 406 | 386 | 95.0739 | |
| ghariani-varprowl | SNP | ti | map_l125_m0_e0 | het | 96.8041 | 98.4267 | 95.2342 | 81.7798 | 8133 | 130 | 8133 | 407 | 98 | 24.0786 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 83.1359 | 92.9012 | 75.2282 | 88.8693 | 1204 | 92 | 1236 | 407 | 118 | 28.9926 | |
| jpowers-varprowl | SNP | tv | map_l125_m2_e1 | het | 96.3352 | 96.5223 | 96.1488 | 80.1525 | 10186 | 367 | 10186 | 408 | 95 | 23.2843 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 77.5652 | 94.8718 | 65.5987 | 55.1946 | 703 | 38 | 778 | 408 | 397 | 97.3039 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.4244 | 95.8506 | 97.0051 | 52.0671 | 13213 | 572 | 13215 | 408 | 385 | 94.3627 | |
| gduggal-bwavard | INDEL | I16_PLUS | HG002complexvar | het | 70.9283 | 88.2707 | 59.2814 | 63.1347 | 587 | 78 | 594 | 408 | 285 | 69.8529 | |