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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
73451-73500 / 86044 show all | |||||||||||||||
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.2960 | 99.5274 | 99.0657 | 69.8134 | 45486 | 216 | 45486 | 429 | 30 | 6.9930 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.2960 | 99.5274 | 99.0657 | 69.8134 | 45486 | 216 | 45486 | 429 | 30 | 6.9930 | |
| bgallagher-sentieon | SNP | * | map_l150_m0_e0 | * | 98.7085 | 99.1107 | 98.3096 | 80.7877 | 11925 | 107 | 11922 | 205 | 30 | 14.6341 | |
| bgallagher-sentieon | SNP | ti | map_l150_m2_e0 | het | 98.8935 | 99.2392 | 98.5502 | 79.6724 | 12783 | 98 | 12779 | 188 | 30 | 15.9574 | |
| bgallagher-sentieon | SNP | ti | map_l150_m2_e1 | het | 98.8973 | 99.2470 | 98.5500 | 79.7478 | 12917 | 98 | 12913 | 190 | 30 | 15.7895 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 95.8836 | 92.6404 | 99.3621 | 26.9063 | 4305 | 342 | 4829 | 31 | 30 | 96.7742 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 91.8400 | 87.9187 | 96.1276 | 66.5396 | 735 | 101 | 844 | 34 | 30 | 88.2353 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.9429 | 98.0986 | 99.8019 | 70.2570 | 44833 | 869 | 44833 | 89 | 30 | 33.7079 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.9429 | 98.0986 | 99.8019 | 70.2570 | 44833 | 869 | 44833 | 89 | 30 | 33.7079 | |
| astatham-gatk | SNP | ti | map_siren | het | 90.2825 | 82.3747 | 99.8698 | 61.4644 | 51387 | 10995 | 51378 | 67 | 30 | 44.7761 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.9660 | 98.1027 | 97.8297 | 69.4907 | 1758 | 34 | 1758 | 39 | 30 | 76.9231 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.9798 | 94.5444 | 99.5441 | 27.3611 | 6724 | 388 | 6768 | 31 | 30 | 96.7742 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.9771 | 94.5358 | 99.5479 | 27.9803 | 6782 | 392 | 6826 | 31 | 30 | 96.7742 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.6399 | 91.5309 | 97.9675 | 67.1249 | 1686 | 156 | 1687 | 35 | 30 | 85.7143 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.1342 | 96.9891 | 99.3066 | 64.2892 | 5154 | 160 | 5156 | 36 | 30 | 83.3333 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 66.1428 | 53.3144 | 87.1011 | 85.8167 | 1311 | 1148 | 1310 | 194 | 30 | 15.4639 | |
| gduggal-bwaplat | SNP | * | map_l150_m2_e0 | * | 69.3373 | 53.2274 | 99.4313 | 91.0275 | 16954 | 14898 | 16958 | 97 | 30 | 30.9278 | |
| gduggal-bwaplat | SNP | * | map_l150_m2_e1 | * | 69.5020 | 53.4244 | 99.4224 | 91.0196 | 17208 | 15002 | 17212 | 100 | 30 | 30.0000 | |
| gduggal-bwaplat | SNP | ti | map_l125_m1_e0 | het | 79.9258 | 66.9495 | 99.1416 | 88.1040 | 12229 | 6037 | 12243 | 106 | 30 | 28.3019 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 76.0853 | 63.1134 | 95.7692 | 72.6027 | 746 | 436 | 747 | 33 | 30 | 90.9091 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 69.8019 | 55.0659 | 95.3064 | 79.2366 | 1462 | 1193 | 1462 | 72 | 30 | 41.6667 | |
| gduggal-bwavard | INDEL | C6_15 | * | het | 73.0769 | 100.0000 | 57.5758 | 94.9772 | 7 | 0 | 171 | 126 | 30 | 23.8095 | |
| gduggal-bwavard | INDEL | C6_15 | HG002complexvar | het | 83.1683 | 100.0000 | 71.1864 | 87.6634 | 4 | 0 | 168 | 68 | 30 | 44.1176 | |
| gduggal-bwavard | SNP | ti | segdup | homalt | 98.7626 | 97.9614 | 99.5771 | 88.2815 | 7352 | 153 | 7300 | 31 | 30 | 96.7742 | |
| gduggal-bwavard | SNP | tv | map_l125_m0_e0 | het | 89.1615 | 98.1141 | 81.7062 | 85.2941 | 4318 | 83 | 4310 | 965 | 30 | 3.1088 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 73.3639 | 62.2101 | 89.3910 | 71.1778 | 456 | 277 | 455 | 54 | 30 | 55.5556 | |
| eyeh-varpipe | INDEL | C6_15 | HG002compoundhet | homalt | 0.0000 | 0.0000 | 2.8571 | 84.2342 | 0 | 0 | 1 | 34 | 30 | 88.2353 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 18.7138 | 10.4396 | 90.2235 | 66.4165 | 247 | 2119 | 323 | 35 | 30 | 85.7143 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 55.5323 | 39.1709 | 95.3662 | 55.2807 | 463 | 719 | 638 | 31 | 30 | 96.7742 | |
| eyeh-varpipe | INDEL | D6_15 | map_l100_m1_e0 | homalt | 75.3723 | 82.8125 | 69.1589 | 84.6705 | 53 | 11 | 74 | 33 | 30 | 90.9091 | |
| eyeh-varpipe | INDEL | D6_15 | segdup | homalt | 71.4286 | 90.0000 | 59.2105 | 90.9524 | 45 | 5 | 45 | 31 | 30 | 96.7742 | |
| eyeh-varpipe | INDEL | I16_PLUS | HG002complexvar | homalt | 76.6428 | 68.6084 | 86.8085 | 37.6658 | 212 | 97 | 204 | 31 | 30 | 96.7742 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 83.4783 | 85.7143 | 81.3559 | 70.4013 | 42 | 7 | 144 | 33 | 30 | 90.9091 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 48.0410 | 32.1373 | 95.1060 | 47.1096 | 206 | 435 | 583 | 30 | 30 | 100.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 74.7922 | 62.5000 | 93.1034 | 51.7203 | 385 | 231 | 405 | 30 | 30 | 100.0000 | |
| gduggal-bwafb | INDEL | D6_15 | HG002complexvar | het | 93.9461 | 89.7756 | 98.5230 | 50.1907 | 2801 | 319 | 3602 | 54 | 30 | 55.5556 | |
| gduggal-bwafb | INDEL | I16_PLUS | HG002compoundhet | het | 28.9364 | 17.0213 | 96.4581 | 27.6068 | 8 | 39 | 817 | 30 | 30 | 100.0000 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 91.9041 | 90.7937 | 93.0421 | 69.1771 | 572 | 58 | 575 | 43 | 30 | 69.7674 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 92.8504 | 88.1608 | 98.0670 | 34.4871 | 3552 | 477 | 1522 | 30 | 30 | 100.0000 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 67.1080 | 54.2510 | 87.9518 | 61.8098 | 134 | 113 | 219 | 30 | 30 | 100.0000 | |
| gduggal-bwafb | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.6944 | 99.7089 | 99.6800 | 57.2704 | 17127 | 50 | 17130 | 55 | 30 | 54.5455 | |
| gduggal-bwafb | SNP | * | segdup | * | 98.9280 | 99.4656 | 98.3963 | 91.8876 | 27917 | 150 | 27917 | 455 | 30 | 6.5934 | |
| eyeh-varpipe | SNP | * | map_l150_m1_e0 | * | 98.5692 | 99.6472 | 97.5143 | 77.5222 | 30501 | 108 | 29619 | 755 | 30 | 3.9735 | |
| eyeh-varpipe | SNP | * | map_l150_m2_e0 | * | 98.5884 | 99.6578 | 97.5418 | 78.8388 | 31743 | 109 | 30831 | 777 | 30 | 3.8610 | |
| eyeh-varpipe | SNP | * | map_l150_m2_e1 | * | 98.5942 | 99.6616 | 97.5494 | 78.9029 | 32101 | 109 | 31168 | 783 | 30 | 3.8314 | |
| eyeh-varpipe | SNP | tv | map_siren | * | 97.2803 | 99.8215 | 94.8652 | 61.8425 | 45848 | 82 | 45301 | 2452 | 30 | 1.2235 | |
| egarrison-hhga | INDEL | * | segdup | het | 97.9069 | 98.6357 | 97.1888 | 94.2947 | 1446 | 20 | 1452 | 42 | 30 | 71.4286 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 90.3594 | 93.8224 | 87.1429 | 56.0440 | 243 | 16 | 244 | 36 | 30 | 83.3333 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 84.8057 | 94.4882 | 76.9231 | 49.6774 | 120 | 7 | 120 | 36 | 30 | 83.3333 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.8822 | 98.9362 | 98.8283 | 47.8545 | 3627 | 39 | 3627 | 43 | 30 | 69.7674 | |