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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
65151-65200 / 86044 show all | |||||||||||||||
| ckim-dragen | SNP | ti | map_l250_m1_e0 | homalt | 99.1261 | 98.8177 | 99.4364 | 82.0944 | 1588 | 19 | 1588 | 9 | 8 | 88.8889 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.1570 | 98.8791 | 99.4364 | 71.0422 | 1235 | 14 | 1235 | 7 | 4 | 57.1429 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.1570 | 98.8791 | 99.4364 | 71.0422 | 1235 | 14 | 1235 | 7 | 4 | 57.1429 | |
| qzeng-custom | SNP | tv | func_cds | het | 99.5488 | 99.6613 | 99.4365 | 40.8444 | 2648 | 9 | 2647 | 15 | 0 | 0.0000 | |
| rpoplin-dv42 | SNP | * | map_l125_m2_e1 | * | 99.2571 | 99.0784 | 99.4365 | 70.8435 | 46767 | 435 | 46761 | 265 | 170 | 64.1509 | |
| ndellapenna-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.3503 | 99.2642 | 99.4366 | 68.8610 | 11467 | 85 | 11472 | 65 | 58 | 89.2308 | |
| ndellapenna-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.3503 | 99.2642 | 99.4366 | 68.8610 | 11467 | 85 | 11472 | 65 | 58 | 89.2308 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.3666 | 99.2968 | 99.4366 | 88.7015 | 1412 | 10 | 1412 | 8 | 7 | 87.5000 | |
| eyeh-varpipe | INDEL | D1_5 | segdup | het | 99.2846 | 99.1329 | 99.4366 | 93.3025 | 686 | 6 | 706 | 4 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.6517 | 95.9297 | 99.4366 | 32.4551 | 6882 | 292 | 6883 | 39 | 39 | 100.0000 | |
| jpowers-varprowl | SNP | tv | map_siren | homalt | 99.3790 | 99.3213 | 99.4367 | 59.4375 | 17123 | 117 | 17123 | 97 | 72 | 74.2268 | |
| egarrison-hhga | SNP | * | map_l250_m2_e1 | het | 98.3289 | 97.2454 | 99.4367 | 88.6583 | 5119 | 145 | 5119 | 29 | 11 | 37.9310 | |
| astatham-gatk | SNP | * | map_l150_m0_e0 | * | 93.4108 | 88.0735 | 99.4368 | 82.7630 | 10597 | 1435 | 10594 | 60 | 21 | 35.0000 | |
| astatham-gatk | SNP | tv | map_l125_m0_e0 | * | 93.2991 | 87.8751 | 99.4368 | 79.1316 | 5827 | 804 | 5826 | 33 | 9 | 27.2727 | |
| gduggal-bwaplat | SNP | tv | map_l150_m0_e0 | * | 55.0840 | 38.0930 | 99.4371 | 95.3509 | 1590 | 2584 | 1590 | 9 | 4 | 44.4444 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 55.1982 | 38.2022 | 99.4371 | 43.8652 | 3196 | 5170 | 3180 | 18 | 16 | 88.8889 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.2418 | 99.0470 | 99.4374 | 74.2668 | 63817 | 614 | 63806 | 361 | 326 | 90.3047 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 89.0334 | 80.6002 | 99.4376 | 31.3443 | 1907 | 459 | 1945 | 11 | 10 | 90.9091 | |
| raldana-dualsentieon | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3283 | 99.2191 | 99.4377 | 37.1644 | 18041 | 142 | 18038 | 102 | 2 | 1.9608 | |
| ckim-gatk | INDEL | D1_5 | * | het | 99.6268 | 99.8162 | 99.4381 | 60.7761 | 87413 | 161 | 87419 | 494 | 126 | 25.5061 | |
| cchapple-custom | INDEL | I6_15 | segdup | * | 99.1468 | 98.8571 | 99.4382 | 92.6110 | 173 | 2 | 177 | 1 | 0 | 0.0000 | |
| jli-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.4034 | 93.5484 | 99.4382 | 67.4589 | 174 | 12 | 177 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.3332 | 97.2524 | 99.4383 | 69.4992 | 15149 | 428 | 15226 | 86 | 78 | 90.6977 | |
| bgallagher-sentieon | SNP | tv | func_cds | het | 99.7184 | 100.0000 | 99.4384 | 31.4601 | 2657 | 0 | 2656 | 15 | 0 | 0.0000 | |
| anovak-vg | SNP | * | * | homalt | 99.1091 | 98.7819 | 99.4384 | 16.6644 | 1165787 | 14375 | 1158439 | 6543 | 5522 | 84.3955 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.5306 | 97.6388 | 99.4388 | 47.4185 | 35728 | 864 | 35971 | 203 | 125 | 61.5764 | |
| qzeng-custom | INDEL | D1_5 | * | homalt | 99.2131 | 98.9883 | 99.4390 | 53.3870 | 48431 | 495 | 48391 | 273 | 239 | 87.5458 | |
| hfeng-pmm2 | SNP | * | map_l150_m0_e0 | homalt | 99.5726 | 99.7065 | 99.4390 | 76.7349 | 4077 | 12 | 4077 | 23 | 8 | 34.7826 | |
| cchapple-custom | SNP | * | func_cds | het | 99.6697 | 99.9014 | 99.4391 | 30.1424 | 11150 | 11 | 11168 | 63 | 1 | 1.5873 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l125_m2_e1 | * | 75.7295 | 61.1494 | 99.4393 | 94.2939 | 532 | 338 | 532 | 3 | 1 | 33.3333 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.5871 | 95.8024 | 99.4396 | 50.7631 | 5683 | 249 | 5678 | 32 | 30 | 93.7500 | |
| ckim-isaac | SNP | tv | map_l250_m2_e0 | * | 60.1307 | 43.0951 | 99.4396 | 91.3095 | 1242 | 1640 | 1242 | 7 | 1 | 14.2857 | |
| mlin-fermikit | INDEL | D16_PLUS | HG002complexvar | hetalt | 85.1780 | 74.4939 | 99.4398 | 52.4000 | 184 | 63 | 355 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.6261 | 99.8129 | 99.4400 | 42.7465 | 2134 | 4 | 2131 | 12 | 2 | 16.6667 | |
| hfeng-pmm3 | SNP | tv | map_l125_m2_e1 | het | 99.3837 | 99.3272 | 99.4402 | 72.3386 | 10482 | 71 | 10480 | 59 | 5 | 8.4746 | |
| jli-custom | INDEL | I1_5 | segdup | het | 99.3483 | 99.2565 | 99.4403 | 94.7265 | 534 | 4 | 533 | 3 | 0 | 0.0000 | |
| hfeng-pmm1 | SNP | ti | map_l250_m1_e0 | homalt | 99.4712 | 99.5022 | 99.4403 | 86.8852 | 1599 | 8 | 1599 | 9 | 2 | 22.2222 | |
| egarrison-hhga | SNP | * | segdup | het | 99.4921 | 99.5438 | 99.4404 | 89.6178 | 17238 | 79 | 17238 | 97 | 4 | 4.1237 | |
| ltrigg-rtg1 | SNP | * | func_cds | * | 99.6647 | 99.8898 | 99.4405 | 22.8252 | 18130 | 20 | 18129 | 102 | 1 | 0.9804 | |
| hfeng-pmm1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 90.8046 | 83.5488 | 99.4406 | 88.0415 | 711 | 140 | 711 | 4 | 0 | 0.0000 | |
| hfeng-pmm3 | SNP | ti | map_l250_m1_e0 | homalt | 99.5025 | 99.5644 | 99.4406 | 86.8266 | 1600 | 7 | 1600 | 9 | 2 | 22.2222 | |
| hfeng-pmm2 | SNP | ti | map_l250_m1_e0 | homalt | 99.5025 | 99.5644 | 99.4406 | 86.8749 | 1600 | 7 | 1600 | 9 | 2 | 22.2222 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.3017 | 99.1632 | 99.4406 | 55.8914 | 711 | 6 | 711 | 4 | 3 | 75.0000 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.9367 | 98.4377 | 99.4408 | 75.9589 | 44988 | 714 | 44988 | 253 | 34 | 13.4387 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.9367 | 98.4377 | 99.4408 | 75.9589 | 44988 | 714 | 44988 | 253 | 34 | 13.4387 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.6664 | 95.9541 | 99.4410 | 50.6296 | 5692 | 240 | 5692 | 32 | 30 | 93.7500 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.2748 | 99.1091 | 99.4411 | 74.0482 | 63857 | 574 | 63870 | 359 | 327 | 91.0864 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 93.8071 | 88.7770 | 99.4413 | 46.0843 | 2381 | 301 | 890 | 5 | 4 | 80.0000 | |
| gduggal-bwafb | INDEL | I1_5 | map_l125_m0_e0 | het | 95.9569 | 92.7083 | 99.4413 | 88.6493 | 178 | 14 | 178 | 1 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.6386 | 95.9000 | 99.4413 | 58.6605 | 3415 | 146 | 3382 | 19 | 14 | 73.6842 | |