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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
4851-4900 / 86044 show all | |||||||||||||||
| cchapple-custom | SNP | * | map_l150_m0_e0 | * | 95.8209 | 95.5951 | 96.0478 | 81.9455 | 11502 | 530 | 11495 | 473 | 120 | 25.3700 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 24.6578 | 16.3033 | 50.5747 | 64.7773 | 486 | 2495 | 484 | 473 | 460 | 97.2516 | |
| ckim-vqsr | INDEL | D1_5 | * | * | 99.5124 | 99.3485 | 99.6767 | 61.5493 | 145789 | 956 | 145843 | 473 | 318 | 67.2304 | |
| eyeh-varpipe | SNP | ti | map_l100_m2_e1 | het | 99.0385 | 99.6286 | 98.4553 | 71.2000 | 30845 | 115 | 30148 | 473 | 19 | 4.0169 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 96.4992 | 99.3239 | 93.8307 | 37.7780 | 7198 | 49 | 7194 | 473 | 470 | 99.3658 | |
| gduggal-snapvard | INDEL | * | map_l150_m2_e0 | * | 85.1445 | 92.4716 | 78.8934 | 90.8735 | 1302 | 106 | 1768 | 473 | 151 | 31.9239 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 90.5197 | 98.8415 | 83.4904 | 85.3580 | 2389 | 28 | 2392 | 473 | 36 | 7.6110 | |
| ghariani-varprowl | SNP | tv | map_l100_m0_e0 | het | 96.3501 | 99.0446 | 93.7983 | 79.0409 | 7153 | 69 | 7154 | 473 | 76 | 16.0677 | |
| jpowers-varprowl | SNP | ti | map_l125_m1_e0 | * | 97.7356 | 97.1093 | 98.3701 | 74.4440 | 28487 | 848 | 28487 | 472 | 165 | 34.9576 | |
| cchapple-custom | SNP | * | map_l150_m0_e0 | het | 94.9871 | 95.8312 | 94.1577 | 84.6817 | 7609 | 331 | 7607 | 472 | 119 | 25.2119 | |
| ckim-dragen | SNP | tv | map_l100_m1_e0 | het | 98.0692 | 99.1503 | 97.0114 | 73.5010 | 15286 | 131 | 15289 | 471 | 32 | 6.7941 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.2317 | 97.7700 | 98.6978 | 52.2722 | 35776 | 816 | 35699 | 471 | 434 | 92.1444 | |
| ghariani-varprowl | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.4684 | 99.6391 | 97.3249 | 58.7610 | 17115 | 62 | 17136 | 471 | 62 | 13.1635 | |
| gduggal-snapvard | INDEL | * | map_l150_m2_e1 | het | 82.4518 | 96.1039 | 72.1960 | 92.0188 | 888 | 36 | 1223 | 471 | 147 | 31.2102 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 59.1118 | 53.1250 | 66.6194 | 50.7504 | 952 | 840 | 940 | 471 | 467 | 99.1507 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 64.4166 | 93.0962 | 49.2457 | 68.6592 | 445 | 33 | 457 | 471 | 445 | 94.4798 | |
| anovak-vg | INDEL | D16_PLUS | HG002compoundhet | het | 47.7497 | 45.4321 | 50.3165 | 27.0208 | 184 | 221 | 477 | 471 | 319 | 67.7282 | |
| asubramanian-gatk | INDEL | I6_15 | * | * | 96.7639 | 95.5082 | 98.0531 | 53.5929 | 23708 | 1115 | 23721 | 471 | 428 | 90.8705 | |
| asubramanian-gatk | SNP | * | HG002complexvar | * | 98.2310 | 96.5837 | 99.9354 | 19.5730 | 728609 | 25772 | 728466 | 471 | 54 | 11.4650 | |
| bgallagher-sentieon | INDEL | I6_15 | * | * | 97.2604 | 96.4589 | 98.0753 | 52.5522 | 23944 | 879 | 23949 | 470 | 434 | 92.3404 | |
| qzeng-custom | SNP | tv | map_siren | * | 92.0283 | 86.1093 | 98.8212 | 67.3017 | 39550 | 6380 | 39401 | 470 | 339 | 72.1277 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 72.8176 | 66.8723 | 79.9231 | 50.7780 | 1843 | 913 | 1871 | 470 | 429 | 91.2766 | |
| jlack-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.1165 | 99.7497 | 98.4914 | 72.1867 | 30684 | 77 | 30684 | 470 | 460 | 97.8723 | |
| jpowers-varprowl | SNP | ti | map_l125_m2_e1 | het | 96.9708 | 96.4374 | 97.5102 | 78.4083 | 18407 | 680 | 18407 | 470 | 150 | 31.9149 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 75.4613 | 91.1765 | 64.3669 | 39.3284 | 775 | 75 | 849 | 470 | 455 | 96.8085 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 89.0456 | 96.0304 | 83.0080 | 88.0462 | 2274 | 94 | 2296 | 470 | 74 | 15.7447 | |
| eyeh-varpipe | SNP | ti | map_l100_m2_e0 | het | 99.0330 | 99.6245 | 98.4486 | 71.1792 | 30507 | 115 | 29825 | 470 | 19 | 4.0426 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 22.7672 | 17.5860 | 32.2767 | 75.3288 | 271 | 1270 | 224 | 470 | 9 | 1.9149 | |
| ghariani-varprowl | SNP | * | map_l250_m1_e0 | het | 94.1868 | 97.7918 | 90.8381 | 91.9418 | 4650 | 105 | 4650 | 469 | 80 | 17.0576 | |
| ghariani-varprowl | SNP | tv | segdup | * | 97.0800 | 99.5077 | 94.7680 | 93.4258 | 8490 | 42 | 8495 | 469 | 32 | 6.8230 | |
| jlack-gatk | SNP | ti | map_l250_m1_e0 | * | 94.0942 | 97.9472 | 90.5329 | 92.4177 | 4485 | 94 | 4485 | 469 | 43 | 9.1684 | |
| hfeng-pmm3 | SNP | ti | * | * | 99.9596 | 99.9417 | 99.9775 | 17.0194 | 2084295 | 1216 | 2084236 | 469 | 46 | 9.8081 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.4911 | 99.7899 | 95.2959 | 55.3475 | 9501 | 20 | 9501 | 469 | 465 | 99.1471 | |
| ckim-dragen | SNP | * | HG002complexvar | * | 99.9301 | 99.9223 | 99.9379 | 19.4552 | 753795 | 586 | 754278 | 469 | 236 | 50.3198 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.4229 | 96.3710 | 98.4980 | 52.1860 | 30831 | 1161 | 30755 | 469 | 455 | 97.0149 | |
| eyeh-varpipe | SNP | ti | map_l100_m1_e0 | * | 99.3616 | 99.7163 | 99.0095 | 67.2794 | 47795 | 136 | 46883 | 469 | 32 | 6.8230 | |
| jpowers-varprowl | SNP | ti | map_l125_m2_e0 | het | 96.9503 | 96.4187 | 97.4878 | 78.3661 | 18200 | 676 | 18200 | 469 | 150 | 31.9829 | |
| gduggal-snapplat | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 72.2480 | 83.2661 | 63.8051 | 90.8950 | 826 | 166 | 825 | 468 | 9 | 1.9231 | |
| raldana-dualsentieon | SNP | * | map_l100_m1_e0 | het | 99.0827 | 99.1953 | 98.9703 | 66.7199 | 44994 | 365 | 44983 | 468 | 7 | 1.4957 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 29.6749 | 20.1610 | 56.1914 | 69.4731 | 601 | 2380 | 599 | 467 | 448 | 95.9315 | |
| gduggal-snapplat | INDEL | I1_5 | HG002compoundhet | hetalt | 56.9417 | 41.4601 | 90.8753 | 78.7291 | 4634 | 6543 | 4651 | 467 | 392 | 83.9400 | |
| gduggal-snapplat | INDEL | I1_5 | HG002compoundhet | homalt | 46.8802 | 63.5258 | 37.1467 | 83.7347 | 209 | 120 | 276 | 467 | 330 | 70.6638 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 81.0388 | 91.2786 | 72.8646 | 69.9021 | 1235 | 118 | 1254 | 467 | 416 | 89.0792 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 86.6953 | 95.6926 | 79.2444 | 84.6511 | 2266 | 102 | 1783 | 467 | 71 | 15.2034 | |
| gduggal-bwavard | INDEL | * | map_l100_m2_e1 | het | 89.9944 | 98.0794 | 83.1408 | 90.1047 | 2298 | 45 | 2303 | 467 | 194 | 41.5418 | |
| gduggal-bwafb | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.7961 | 98.2976 | 95.3398 | 72.9184 | 9527 | 165 | 9554 | 467 | 126 | 26.9807 | |
| dgrover-gatk | INDEL | * | HG002compoundhet | het | 93.5069 | 98.4612 | 89.0273 | 79.7555 | 4031 | 63 | 3789 | 467 | 459 | 98.2869 | |
| dgrover-gatk | SNP | * | map_siren | * | 99.6607 | 99.6410 | 99.6805 | 56.6949 | 145703 | 525 | 145680 | 467 | 103 | 22.0557 | |
| eyeh-varpipe | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 56.5705 | 40.1699 | 95.6035 | 76.3129 | 6193 | 9224 | 10155 | 467 | 451 | 96.5739 | |
| qzeng-custom | SNP | * | map_l150_m0_e0 | * | 75.4274 | 62.9239 | 94.1324 | 92.2685 | 7571 | 4461 | 7492 | 467 | 396 | 84.7966 | |