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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
75701-75750 / 86044 show all | |||||||||||||||
| jmaeng-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.8204 | 92.5954 | 97.1549 | 61.9830 | 3689 | 295 | 3688 | 108 | 102 | 94.4444 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 59.6174 | 68.6837 | 52.6656 | 65.6874 | 647 | 295 | 652 | 586 | 580 | 98.9761 | |
| hfeng-pmm3 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 94.1239 | 92.6980 | 95.5943 | 77.1597 | 3745 | 295 | 3450 | 159 | 125 | 78.6164 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.8307 | 96.4864 | 99.2129 | 59.5573 | 8101 | 295 | 8067 | 64 | 55 | 85.9375 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.9369 | 89.2961 | 96.8873 | 47.7240 | 2461 | 295 | 2459 | 79 | 77 | 97.4684 | |
| hfeng-pmm3 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4357 | 98.9449 | 99.9314 | 53.1567 | 27664 | 295 | 27664 | 19 | 7 | 36.8421 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.4797 | 95.7302 | 99.2944 | 52.9989 | 6614 | 295 | 6614 | 47 | 42 | 89.3617 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 87.2012 | 82.9480 | 91.9141 | 36.2721 | 1435 | 295 | 1455 | 128 | 122 | 95.3125 | |
| ndellapenna-hhga | SNP | tv | map_l100_m2_e1 | * | 99.2907 | 98.8332 | 99.7525 | 64.4232 | 24988 | 295 | 24988 | 62 | 24 | 38.7097 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 80.9804 | 74.1455 | 89.2034 | 78.7338 | 846 | 295 | 851 | 103 | 101 | 98.0583 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.2206 | 92.5954 | 97.9989 | 55.8475 | 3689 | 295 | 3722 | 76 | 35 | 46.0526 | |
| qzeng-custom | SNP | * | map_l250_m0_e0 | homalt | 69.0753 | 53.1002 | 98.7988 | 95.2759 | 334 | 295 | 329 | 4 | 4 | 100.0000 | |
| mlin-fermikit | INDEL | * | map_l150_m0_e0 | * | 55.2333 | 42.6070 | 78.4946 | 86.0290 | 219 | 295 | 219 | 60 | 41 | 68.3333 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 89.8927 | 82.1104 | 99.3046 | 32.2337 | 1354 | 295 | 1428 | 10 | 10 | 100.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.3558 | 97.1558 | 99.5859 | 47.3310 | 10111 | 296 | 10101 | 42 | 37 | 88.0952 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 88.6545 | 85.9115 | 91.5784 | 51.4278 | 1805 | 296 | 1729 | 159 | 156 | 98.1132 | |
| gduggal-bwavard | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 94.1916 | 95.2534 | 93.1533 | 76.2686 | 5940 | 296 | 5864 | 431 | 178 | 41.2993 | |
| gduggal-bwaplat | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.2539 | 90.8867 | 97.8801 | 82.7110 | 2952 | 296 | 2955 | 64 | 9 | 14.0625 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.8170 | 92.7219 | 99.1258 | 58.3884 | 3771 | 296 | 3742 | 33 | 31 | 93.9394 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 82.5923 | 77.5927 | 88.2806 | 60.8637 | 1025 | 296 | 1032 | 137 | 136 | 99.2701 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 69.6410 | 0.0000 | 0.0000 | 679 | 296 | 0 | 0 | 0 | ||
| gduggal-snapfb | SNP | ti | map_l250_m2_e0 | * | 94.5805 | 94.0895 | 95.0767 | 89.6969 | 4712 | 296 | 4712 | 244 | 127 | 52.0492 | |
| gduggal-snapplat | INDEL | * | map_l100_m1_e0 | homalt | 84.8014 | 75.8761 | 96.1064 | 87.1554 | 931 | 296 | 1012 | 41 | 2 | 4.8781 | |
| egarrison-hhga | SNP | * | map_l150_m2_e0 | het | 99.1156 | 98.5298 | 99.7085 | 75.6800 | 19837 | 296 | 19837 | 58 | 22 | 37.9310 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.6017 | 95.6643 | 99.6192 | 25.0742 | 6531 | 296 | 6540 | 25 | 24 | 96.0000 | |
| ckim-isaac | INDEL | D1_5 | map_siren | homalt | 85.4065 | 74.6575 | 99.7712 | 71.3349 | 872 | 296 | 872 | 2 | 1 | 50.0000 | |
| egarrison-hhga | SNP | * | map_l150_m2_e1 | het | 99.1207 | 98.5415 | 99.7068 | 75.7393 | 20066 | 297 | 20066 | 59 | 22 | 37.2881 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 87.7692 | 97.8411 | 79.5775 | 59.2240 | 13460 | 297 | 13899 | 3567 | 3388 | 94.9818 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 87.7692 | 97.8411 | 79.5775 | 59.2240 | 13460 | 297 | 13899 | 3567 | 3388 | 94.9818 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 87.8108 | 78.3843 | 99.8145 | 76.5550 | 1077 | 297 | 1076 | 2 | 2 | 100.0000 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 84.1187 | 95.1327 | 75.3903 | 72.1991 | 5805 | 297 | 5747 | 1876 | 1702 | 90.7249 | |
| gduggal-bwavard | SNP | tv | map_l100_m2_e0 | het | 94.4449 | 98.1175 | 91.0373 | 80.3474 | 15480 | 297 | 15429 | 1519 | 88 | 5.7933 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 78.5568 | 68.4713 | 92.1266 | 57.1031 | 645 | 297 | 1135 | 97 | 92 | 94.8454 | |
| raldana-dualsentieon | SNP | * | map_l125_m1_e0 | het | 98.7746 | 98.9539 | 98.5959 | 72.5206 | 28095 | 297 | 28089 | 400 | 4 | 1.0000 | |
| rpoplin-dv42 | SNP | * | map_l125_m1_e0 | het | 99.0847 | 98.9539 | 99.2159 | 70.0178 | 28095 | 297 | 28089 | 222 | 128 | 57.6577 | |
| asubramanian-gatk | INDEL | * | map_l125_m2_e1 | * | 91.1601 | 86.6517 | 96.1634 | 97.1389 | 1928 | 297 | 1930 | 77 | 8 | 10.3896 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.4170 | 92.5452 | 96.3660 | 61.9062 | 3687 | 297 | 3686 | 139 | 128 | 92.0863 | |
| anovak-vg | INDEL | I1_5 | map_l125_m2_e0 | het | 49.5663 | 40.2414 | 64.5161 | 91.8362 | 200 | 297 | 220 | 121 | 15 | 12.3967 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.1834 | 97.9681 | 98.3997 | 62.7279 | 14320 | 297 | 13958 | 227 | 196 | 86.3436 | |
| hfeng-pmm2 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.5045 | 95.2373 | 99.8823 | 66.3421 | 5939 | 297 | 5939 | 7 | 4 | 57.1429 | |
| jpowers-varprowl | INDEL | * | segdup | * | 89.1593 | 88.3803 | 89.9522 | 94.2165 | 2259 | 297 | 2256 | 252 | 223 | 88.4921 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.5596 | 97.4138 | 99.7327 | 50.5529 | 11187 | 297 | 11193 | 30 | 28 | 93.3333 | |
| ndellapenna-hhga | SNP | * | map_l150_m0_e0 | * | 98.5596 | 97.5316 | 99.6095 | 77.4194 | 11735 | 297 | 11735 | 46 | 22 | 47.8261 | |
| qzeng-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 86.0985 | 86.5550 | 85.6468 | 63.2965 | 1912 | 297 | 1993 | 334 | 189 | 56.5868 | |
| mlin-fermikit | INDEL | D6_15 | HG002complexvar | het | 92.4085 | 90.4808 | 94.4202 | 55.5173 | 2823 | 297 | 2809 | 166 | 152 | 91.5663 | |
| gduggal-bwavard | SNP | ti | map_l125_m2_e0 | homalt | 98.6173 | 97.3763 | 99.8904 | 68.4929 | 11060 | 298 | 10932 | 12 | 9 | 75.0000 | |
| gduggal-bwavard | SNP | tv | map_l100_m2_e1 | het | 94.4719 | 98.1303 | 91.0764 | 80.3818 | 15640 | 298 | 15585 | 1527 | 90 | 5.8939 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 60.3870 | 78.8652 | 48.9241 | 68.3622 | 1112 | 298 | 1205 | 1258 | 386 | 30.6836 | |
| ciseli-custom | INDEL | * | map_l125_m1_e0 | homalt | 66.8206 | 59.2896 | 76.5432 | 87.7564 | 434 | 298 | 434 | 133 | 104 | 78.1955 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.2782 | 97.1365 | 99.4471 | 33.4959 | 10109 | 298 | 17626 | 98 | 90 | 91.8367 | |