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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
28201-28250 / 86044 show all | |||||||||||||||
| jli-custom | SNP | tv | map_l150_m2_e0 | het | 98.7416 | 98.4694 | 99.0154 | 74.3882 | 7141 | 111 | 7140 | 71 | 19 | 26.7606 | |
| jli-custom | SNP | tv | map_l150_m2_e1 | het | 98.7581 | 98.4894 | 99.0283 | 74.4439 | 7237 | 111 | 7236 | 71 | 19 | 26.7606 | |
| anovak-vg | SNP | * | map_l100_m0_e0 | * | 81.2078 | 85.4511 | 77.3660 | 74.7301 | 28063 | 4778 | 27745 | 8117 | 2172 | 26.7587 | |
| gduggal-bwaplat | SNP | * | map_l100_m1_e0 | het | 86.2179 | 76.2737 | 99.1438 | 83.9192 | 34597 | 10762 | 34621 | 299 | 80 | 26.7559 | |
| jpowers-varprowl | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.9586 | 98.9331 | 97.0031 | 50.6413 | 17989 | 194 | 18029 | 557 | 149 | 26.7504 | |
| gduggal-bwafb | SNP | * | map_l250_m2_e1 | * | 97.8266 | 97.4959 | 98.1596 | 89.9363 | 7787 | 200 | 7787 | 146 | 39 | 26.7123 | |
| jpowers-varprowl | SNP | tv | map_l150_m1_e0 | * | 96.7188 | 96.5726 | 96.8655 | 80.4419 | 10538 | 374 | 10538 | 341 | 91 | 26.6862 | |
| gduggal-snapvard | INDEL | C1_5 | HG002complexvar | * | 81.4638 | 100.0000 | 68.7248 | 77.2577 | 7 | 0 | 3072 | 1398 | 373 | 26.6810 | |
| gduggal-snapvard | INDEL | I1_5 | map_l250_m1_e0 | het | 79.7395 | 96.6667 | 67.8571 | 96.3721 | 58 | 2 | 95 | 45 | 12 | 26.6667 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 52.9704 | 41.0714 | 74.5763 | 89.3694 | 46 | 66 | 44 | 15 | 4 | 26.6667 | |
| gduggal-bwaplat | SNP | * | map_l125_m2_e0 | het | 79.9285 | 66.9418 | 99.1669 | 89.4354 | 19626 | 9692 | 19640 | 165 | 44 | 26.6667 | |
| hfeng-pmm3 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1505 | 98.3978 | 99.9147 | 54.8907 | 17565 | 286 | 17565 | 15 | 4 | 26.6667 | |
| jli-custom | INDEL | * | map_l150_m1_e0 | het | 98.1285 | 98.0117 | 98.2456 | 88.8001 | 838 | 17 | 840 | 15 | 4 | 26.6667 | |
| jli-custom | INDEL | * | map_l150_m2_e0 | het | 98.1776 | 98.0132 | 98.3425 | 89.4239 | 888 | 18 | 890 | 15 | 4 | 26.6667 | |
| jli-custom | INDEL | * | map_l150_m2_e1 | het | 98.1579 | 97.9437 | 98.3731 | 89.4713 | 905 | 19 | 907 | 15 | 4 | 26.6667 | |
| hfeng-pmm3 | INDEL | * | map_l150_m0_e0 | * | 97.7834 | 98.4436 | 97.1319 | 90.8917 | 506 | 8 | 508 | 15 | 4 | 26.6667 | |
| dgrover-gatk | SNP | ti | map_l250_m1_e0 | het | 98.2014 | 98.4164 | 97.9873 | 91.3429 | 2921 | 47 | 2921 | 60 | 16 | 26.6667 | |
| dgrover-gatk | SNP | ti | map_l250_m2_e0 | het | 98.3591 | 98.5556 | 98.1635 | 91.6192 | 3207 | 47 | 3207 | 60 | 16 | 26.6667 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 71.6705 | 61.2500 | 86.3636 | 81.0017 | 98 | 62 | 95 | 15 | 4 | 26.6667 | |
| dgrover-gatk | INDEL | D1_5 | map_l150_m2_e1 | * | 98.2053 | 98.3290 | 98.0818 | 90.2929 | 765 | 13 | 767 | 15 | 4 | 26.6667 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5497 | 99.6000 | 99.4995 | 76.1480 | 2988 | 12 | 2982 | 15 | 4 | 26.6667 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8660 | 99.8235 | 99.9086 | 58.4519 | 16400 | 29 | 16399 | 15 | 4 | 26.6667 | |
| ltrigg-rtg1 | SNP | * | map_l250_m2_e1 | het | 96.6928 | 93.8640 | 99.6973 | 80.4597 | 4941 | 323 | 4941 | 15 | 4 | 26.6667 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 93.4043 | 94.3966 | 92.4327 | 50.2787 | 438 | 26 | 1649 | 135 | 36 | 26.6667 | |
| ndellapenna-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5635 | 99.5014 | 99.6257 | 47.9205 | 3991 | 20 | 3992 | 15 | 4 | 26.6667 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l125_m1_e0 | * | 98.1075 | 97.6103 | 98.6098 | 84.5171 | 1062 | 26 | 1064 | 15 | 4 | 26.6667 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l125_m2_e0 | * | 98.1990 | 97.7253 | 98.6772 | 85.2305 | 1117 | 26 | 1119 | 15 | 4 | 26.6667 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l125_m2_e1 | * | 98.2208 | 97.7528 | 98.6934 | 85.3084 | 1131 | 26 | 1133 | 15 | 4 | 26.6667 | |
| ltrigg-rtg2 | SNP | ti | HG002compoundhet | het | 99.3400 | 99.0005 | 99.6817 | 37.0509 | 9410 | 95 | 9396 | 30 | 8 | 26.6667 | |
| cchapple-custom | SNP | * | map_l250_m0_e0 | het | 94.5598 | 94.1567 | 94.9664 | 94.4554 | 1418 | 88 | 1415 | 75 | 20 | 26.6667 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 82.2315 | 84.9860 | 79.6499 | 75.4433 | 1817 | 321 | 1820 | 465 | 124 | 26.6667 | |
| ciseli-custom | INDEL | C1_5 | segdup | * | 0.0000 | 0.0000 | 21.0526 | 98.7821 | 0 | 0 | 4 | 15 | 4 | 26.6667 | |
| ckim-dragen | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 98.8470 | 98.2089 | 99.4934 | 48.2524 | 2906 | 53 | 2946 | 15 | 4 | 26.6667 | |
| cchapple-custom | SNP | ti | map_l250_m1_e0 | het | 95.4232 | 95.5189 | 95.3277 | 91.2575 | 2835 | 133 | 2836 | 139 | 37 | 26.6187 | |
| gduggal-snapfb | SNP | tv | map_siren | * | 98.2058 | 98.6697 | 97.7461 | 64.5313 | 45319 | 611 | 45320 | 1045 | 278 | 26.6029 | |
| ciseli-custom | SNP | ti | map_l125_m1_e0 | * | 81.8023 | 77.7842 | 86.2580 | 75.7269 | 22818 | 6517 | 22798 | 3632 | 966 | 26.5969 | |
| gduggal-bwavard | INDEL | * | map_l125_m1_e0 | * | 91.5570 | 95.1115 | 88.2586 | 89.4208 | 2004 | 103 | 2007 | 267 | 71 | 26.5918 | |
| anovak-vg | SNP | ti | map_l100_m0_e0 | * | 81.1499 | 85.0168 | 77.6195 | 74.1271 | 18509 | 3262 | 18364 | 5295 | 1408 | 26.5911 | |
| cchapple-custom | SNP | ti | map_l150_m2_e0 | * | 96.8497 | 96.6995 | 97.0004 | 78.4535 | 19835 | 677 | 19823 | 613 | 163 | 26.5905 | |
| cchapple-custom | SNP | ti | map_l150_m1_e0 | * | 96.7874 | 96.6213 | 96.9540 | 76.8102 | 19046 | 666 | 19034 | 598 | 159 | 26.5886 | |
| gduggal-snapvard | INDEL | * | map_l125_m0_e0 | * | 84.1360 | 92.1769 | 77.3854 | 90.1890 | 813 | 69 | 1249 | 365 | 97 | 26.5753 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.5504 | 99.5402 | 99.5606 | 75.8969 | 14504 | 67 | 14502 | 64 | 17 | 26.5625 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.5504 | 99.5402 | 99.5606 | 75.8969 | 14504 | 67 | 14502 | 64 | 17 | 26.5625 | |
| gduggal-snapplat | SNP | tv | * | homalt | 99.0993 | 98.3541 | 99.8560 | 22.6563 | 370916 | 6207 | 370887 | 535 | 142 | 26.5421 | |
| gduggal-bwaplat | SNP | * | map_l100_m2_e0 | het | 86.5211 | 76.7517 | 99.1404 | 84.8771 | 35612 | 10787 | 35636 | 309 | 82 | 26.5372 | |
| ckim-dragen | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.7926 | 99.8634 | 99.7220 | 66.5121 | 17544 | 24 | 17576 | 49 | 13 | 26.5306 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 96.6651 | 96.2419 | 97.0920 | 67.8312 | 1639 | 64 | 1636 | 49 | 13 | 26.5306 | |
| gduggal-bwaplat | SNP | * | map_l100_m2_e1 | het | 86.6430 | 76.9436 | 99.1406 | 84.8541 | 36085 | 10813 | 36109 | 313 | 83 | 26.5176 | |
| ciseli-custom | SNP | ti | map_l125_m2_e0 | * | 82.0578 | 78.1149 | 86.4200 | 77.2839 | 23636 | 6622 | 23616 | 3711 | 984 | 26.5158 | |
| ciseli-custom | SNP | * | map_l100_m1_e0 | * | 84.9995 | 81.6845 | 88.5950 | 70.0712 | 59142 | 13261 | 58960 | 7590 | 2012 | 26.5086 | |