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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
51401-51450 / 86044 show all | |||||||||||||||
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.6852 | 99.1559 | 98.2189 | 80.5400 | 14448 | 123 | 14448 | 262 | 15 | 5.7252 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.6852 | 99.1559 | 98.2189 | 80.5400 | 14448 | 123 | 14448 | 262 | 15 | 5.7252 | |
| gduggal-snapfb | SNP | tv | HG002compoundhet | * | 79.6649 | 97.8931 | 67.1595 | 54.5136 | 8735 | 188 | 8812 | 4309 | 247 | 5.7322 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.5888 | 98.8754 | 96.3352 | 68.5340 | 9583 | 109 | 9621 | 366 | 21 | 5.7377 | |
| jlack-gatk | SNP | tv | map_l100_m1_e0 | * | 96.1408 | 99.1511 | 93.3080 | 76.0138 | 24293 | 208 | 24289 | 1742 | 100 | 5.7405 | |
| gduggal-snapfb | SNP | tv | segdup | * | 98.5144 | 99.4491 | 97.5971 | 92.7173 | 8485 | 47 | 8489 | 209 | 12 | 5.7416 | |
| jlack-gatk | SNP | tv | map_l100_m0_e0 | * | 94.2911 | 98.7279 | 90.2359 | 79.7630 | 10943 | 141 | 10942 | 1184 | 68 | 5.7432 | |
| jmaeng-gatk | SNP | tv | map_l150_m0_e0 | het | 74.0589 | 60.6050 | 95.1907 | 94.3590 | 1723 | 1120 | 1722 | 87 | 5 | 5.7471 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 51.0719 | 55.5556 | 47.2579 | 93.7840 | 400 | 320 | 405 | 452 | 26 | 5.7522 | |
| ckim-vqsr | SNP | * | map_siren | het | 90.3081 | 82.7379 | 99.4031 | 73.7019 | 75284 | 15707 | 75273 | 452 | 26 | 5.7522 | |
| jlack-gatk | SNP | tv | map_l250_m2_e1 | * | 92.1359 | 97.6337 | 87.2243 | 93.0989 | 2847 | 69 | 2847 | 417 | 24 | 5.7554 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 74.0031 | 64.7102 | 86.4125 | 82.4649 | 882 | 481 | 884 | 139 | 8 | 5.7554 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 91.7238 | 98.6053 | 85.7401 | 86.4136 | 6787 | 96 | 6163 | 1025 | 59 | 5.7561 | |
| jlack-gatk | INDEL | D1_5 | map_siren | het | 95.7195 | 99.4730 | 92.2389 | 84.5589 | 2265 | 12 | 2270 | 191 | 11 | 5.7592 | |
| gduggal-bwavard | SNP | tv | map_l100_m1_e0 | het | 94.3634 | 98.1060 | 90.8959 | 79.1108 | 15125 | 292 | 15076 | 1510 | 87 | 5.7616 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 82.4169 | 95.5954 | 72.4316 | 76.0055 | 43689 | 2013 | 43987 | 16742 | 965 | 5.7640 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 82.4169 | 95.5954 | 72.4316 | 76.0055 | 43689 | 2013 | 43987 | 16742 | 965 | 5.7640 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.7781 | 95.4039 | 98.1926 | 71.9618 | 2823 | 136 | 2825 | 52 | 3 | 5.7692 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 95.9405 | 94.8116 | 97.0966 | 77.0267 | 1736 | 95 | 1739 | 52 | 3 | 5.7692 | |
| jlack-gatk | INDEL | D1_5 | map_l100_m0_e0 | * | 93.4498 | 98.2619 | 89.0871 | 88.3254 | 848 | 15 | 849 | 104 | 6 | 5.7692 | |
| jlack-gatk | INDEL | * | map_l150_m1_e0 | * | 93.5297 | 98.0568 | 89.4022 | 92.0707 | 1312 | 26 | 1316 | 156 | 9 | 5.7692 | |
| jlack-gatk | SNP | tv | map_l250_m2_e0 | * | 92.0635 | 97.6058 | 87.1168 | 93.0345 | 2813 | 69 | 2813 | 416 | 24 | 5.7692 | |
| raldana-dualsentieon | SNP | ti | map_l100_m2_e0 | * | 99.3403 | 99.3525 | 99.3281 | 64.7470 | 48644 | 317 | 48637 | 329 | 19 | 5.7751 | |
| jlack-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.1906 | 99.8023 | 98.5863 | 61.2684 | 55521 | 110 | 55510 | 796 | 46 | 5.7789 | |
| gduggal-bwavard | SNP | tv | map_l100_m2_e0 | het | 94.4449 | 98.1175 | 91.0373 | 80.3474 | 15480 | 297 | 15429 | 1519 | 88 | 5.7933 | |
| eyeh-varpipe | SNP | ti | map_l250_m2_e1 | het | 98.5825 | 99.2725 | 97.9021 | 91.2682 | 3275 | 24 | 3220 | 69 | 4 | 5.7971 | |
| asubramanian-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 97.6630 | 98.1948 | 97.1369 | 68.1953 | 4678 | 86 | 4682 | 138 | 8 | 5.7971 | |
| jlack-gatk | SNP | tv | map_l150_m2_e0 | * | 94.5181 | 98.7142 | 90.6642 | 84.3431 | 11209 | 146 | 11207 | 1154 | 67 | 5.8059 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 95.6666 | 99.3783 | 92.2222 | 67.1222 | 2238 | 14 | 2241 | 189 | 11 | 5.8201 | |
| ckim-dragen | SNP | * | * | * | 99.8268 | 99.9524 | 99.7015 | 21.8489 | 3053166 | 1453 | 3053731 | 9143 | 533 | 5.8296 | |
| ckim-gatk | SNP | tv | map_l125_m0_e0 | * | 75.4506 | 61.8308 | 96.7658 | 90.3686 | 4100 | 2531 | 4099 | 137 | 8 | 5.8394 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.5464 | 99.5815 | 99.5114 | 49.8381 | 27842 | 117 | 27901 | 137 | 8 | 5.8394 | |
| gduggal-snapvard | SNP | ti | map_l250_m1_e0 | * | 86.1545 | 95.0207 | 78.8017 | 91.2590 | 4351 | 228 | 4327 | 1164 | 68 | 5.8419 | |
| jlack-gatk | SNP | tv | map_l150_m2_e1 | * | 94.5415 | 98.7220 | 90.7006 | 84.3649 | 11355 | 147 | 11353 | 1164 | 68 | 5.8419 | |
| gduggal-bwavard | SNP | ti | map_l100_m0_e0 | het | 93.7781 | 97.4183 | 90.4002 | 80.9729 | 13622 | 361 | 13532 | 1437 | 84 | 5.8455 | |
| jli-custom | SNP | * | * | het | 99.9088 | 99.9498 | 99.8677 | 18.9256 | 1872647 | 940 | 1872558 | 2480 | 145 | 5.8468 | |
| ckim-dragen | SNP | tv | map_l125_m0_e0 | het | 97.2122 | 98.2504 | 96.1958 | 81.1222 | 4324 | 77 | 4324 | 171 | 10 | 5.8480 | |
| raldana-dualsentieon | SNP | * | segdup | * | 99.5928 | 99.7934 | 99.3931 | 89.8391 | 28009 | 58 | 28003 | 171 | 10 | 5.8480 | |
| gduggal-bwavard | SNP | ti | map_l150_m1_e0 | het | 93.4529 | 97.7284 | 89.5358 | 84.8427 | 12089 | 281 | 11996 | 1402 | 82 | 5.8488 | |
| jlack-gatk | SNP | tv | map_l150_m0_e0 | het | 89.8651 | 98.2765 | 82.7801 | 89.5464 | 2794 | 49 | 2793 | 581 | 34 | 5.8520 | |
| gduggal-snapplat | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 79.5706 | 70.3775 | 91.5264 | 68.8371 | 3300 | 1389 | 3316 | 307 | 18 | 5.8632 | |
| jli-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.4050 | 99.7685 | 99.0441 | 61.4043 | 35337 | 82 | 35333 | 341 | 20 | 5.8651 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.5215 | 99.3655 | 97.6917 | 75.5520 | 45412 | 290 | 45412 | 1073 | 63 | 5.8714 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.5215 | 99.3655 | 97.6917 | 75.5520 | 45412 | 290 | 45412 | 1073 | 63 | 5.8714 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 32.0359 | 80.0905 | 20.0224 | 83.6832 | 177 | 44 | 179 | 715 | 42 | 5.8741 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 90.5713 | 98.5668 | 83.7756 | 81.6259 | 45047 | 655 | 45212 | 8756 | 515 | 5.8817 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 90.5713 | 98.5668 | 83.7756 | 81.6259 | 45047 | 655 | 45212 | 8756 | 515 | 5.8817 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 55.9506 | 88.4848 | 40.9091 | 87.7738 | 146 | 19 | 153 | 221 | 13 | 5.8824 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 47.5921 | 56.0000 | 41.3793 | 69.7917 | 14 | 11 | 12 | 17 | 1 | 5.8824 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 33.1361 | 22.5806 | 62.2222 | 91.9210 | 35 | 120 | 28 | 17 | 1 | 5.8824 | |