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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
34501-34550 / 86044 show all | |||||||||||||||
| gduggal-snapfb | SNP | ti | segdup | het | 98.8224 | 99.3766 | 98.2744 | 91.5559 | 11955 | 75 | 11960 | 210 | 13 | 6.1905 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.0815 | 99.5612 | 98.6064 | 70.5927 | 28586 | 126 | 28586 | 404 | 25 | 6.1881 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.0815 | 99.5612 | 98.6064 | 70.5927 | 28586 | 126 | 28586 | 404 | 25 | 6.1881 | |
| ltrigg-rtg1 | SNP | * | * | * | 99.8754 | 99.8921 | 99.8587 | 17.5113 | 3051330 | 3296 | 3051518 | 4317 | 267 | 6.1849 | |
| gduggal-bwavard | SNP | * | map_l125_m1_e0 | * | 95.6870 | 97.6989 | 93.7563 | 78.5243 | 44284 | 1043 | 43712 | 2911 | 180 | 6.1834 | |
| jmaeng-gatk | SNP | * | map_l100_m2_e1 | het | 92.3544 | 87.8737 | 97.3167 | 82.8441 | 41211 | 5687 | 41200 | 1136 | 70 | 6.1620 | |
| eyeh-varpipe | SNP | ti | map_l250_m1_e0 | het | 98.4913 | 99.1914 | 97.8011 | 90.9985 | 2944 | 24 | 2891 | 65 | 4 | 6.1539 | |
| ckim-gatk | INDEL | D1_5 | map_l150_m1_e0 | het | 93.1888 | 98.9627 | 88.0515 | 92.7273 | 477 | 5 | 479 | 65 | 4 | 6.1539 | |
| ckim-dragen | INDEL | D1_5 | map_siren | het | 97.9286 | 98.6825 | 97.1861 | 82.8253 | 2247 | 30 | 2245 | 65 | 4 | 6.1539 | |
| jlack-gatk | SNP | tv | map_l125_m2_e1 | * | 95.1831 | 98.8894 | 91.7447 | 81.3088 | 16472 | 185 | 16470 | 1482 | 91 | 6.1404 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 88.1816 | 92.7536 | 84.0391 | 90.9546 | 256 | 20 | 258 | 49 | 3 | 6.1225 | |
| asubramanian-gatk | INDEL | * | map_l125_m0_e0 | * | 91.5650 | 89.1156 | 94.1527 | 97.5656 | 786 | 96 | 789 | 49 | 3 | 6.1225 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 48.5964 | 51.3854 | 46.0946 | 95.3289 | 408 | 386 | 419 | 490 | 30 | 6.1225 | |
| jlack-gatk | SNP | tv | map_l250_m1_e0 | * | 91.7764 | 97.3933 | 86.7721 | 92.6439 | 2578 | 69 | 2578 | 393 | 24 | 6.1069 | |
| eyeh-varpipe | SNP | ti | map_l150_m2_e1 | * | 99.1748 | 99.6284 | 98.7252 | 78.8203 | 20646 | 77 | 20291 | 262 | 16 | 6.1069 | |
| jlack-gatk | SNP | tv | map_l125_m2_e0 | * | 95.1584 | 98.8841 | 91.7032 | 81.2684 | 16305 | 184 | 16303 | 1475 | 90 | 6.1017 | |
| jlack-gatk | SNP | tv | map_l125_m1_e0 | * | 95.0729 | 98.8636 | 91.5621 | 79.9369 | 15834 | 182 | 15832 | 1459 | 89 | 6.1001 | |
| gduggal-snapvard | SNP | ti | map_l250_m2_e1 | * | 86.9758 | 95.2325 | 80.0366 | 91.7380 | 4834 | 242 | 4807 | 1199 | 73 | 6.0884 | |
| jli-custom | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2041 | 99.7097 | 98.7036 | 65.3598 | 17517 | 51 | 17512 | 230 | 14 | 6.0870 | |
| jmaeng-gatk | SNP | * | map_siren | het | 95.7096 | 93.4477 | 98.0837 | 71.4678 | 85029 | 5962 | 85015 | 1661 | 101 | 6.0807 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 69.9723 | 87.2727 | 58.3961 | 90.3865 | 1104 | 161 | 1085 | 773 | 47 | 6.0802 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 0.0000 | 0.0000 | 2.9412 | 89.6657 | 0 | 0 | 1 | 33 | 2 | 6.0606 | |
| jlack-gatk | INDEL | I1_5 | map_l150_m1_e0 | het | 93.4527 | 97.3244 | 89.8773 | 93.2797 | 291 | 8 | 293 | 33 | 2 | 6.0606 | |
| hfeng-pmm2 | INDEL | D1_5 | map_siren | het | 98.9959 | 99.4291 | 98.5665 | 80.1620 | 2264 | 13 | 2269 | 33 | 2 | 6.0606 | |
| eyeh-varpipe | SNP | ti | map_l250_m2_e0 | het | 98.6087 | 99.2624 | 97.9636 | 91.2085 | 3230 | 24 | 3175 | 66 | 4 | 6.0606 | |
| eyeh-varpipe | SNP | * | map_l250_m0_e0 | * | 98.0582 | 99.2506 | 96.8941 | 94.2786 | 2119 | 16 | 2059 | 66 | 4 | 6.0606 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 97.3244 | 99.6011 | 95.1494 | 59.1637 | 3995 | 16 | 3884 | 198 | 12 | 6.0606 | |
| gduggal-bwaplat | SNP | * | segdup | het | 98.4496 | 98.0539 | 98.8484 | 95.2313 | 16980 | 337 | 16996 | 198 | 12 | 6.0606 | |
| ckim-vqsr | INDEL | * | map_l150_m0_e0 | * | 95.5110 | 97.2763 | 93.8086 | 94.9219 | 500 | 14 | 500 | 33 | 2 | 6.0606 | |
| egarrison-hhga | SNP | tv | segdup | het | 99.4044 | 99.4326 | 99.3762 | 90.4305 | 5257 | 30 | 5257 | 33 | 2 | 6.0606 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.6331 | 99.2657 | 98.0084 | 78.2327 | 14464 | 107 | 14616 | 297 | 18 | 6.0606 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.6331 | 99.2657 | 98.0084 | 78.2327 | 14464 | 107 | 14616 | 297 | 18 | 6.0606 | |
| ckim-gatk | INDEL | D1_5 | map_l150_m2_e0 | het | 93.5024 | 99.0272 | 88.5615 | 93.0997 | 509 | 5 | 511 | 66 | 4 | 6.0606 | |
| ckim-gatk | INDEL | D1_5 | map_l150_m2_e1 | het | 93.4998 | 98.8506 | 88.6986 | 93.1423 | 516 | 6 | 518 | 66 | 4 | 6.0606 | |
| ckim-gatk | INDEL | I1_5 | segdup | * | 98.0421 | 99.1501 | 96.9585 | 95.6110 | 1050 | 9 | 1052 | 33 | 2 | 6.0606 | |
| eyeh-varpipe | SNP | ti | map_siren | * | 99.4355 | 99.7967 | 99.0768 | 57.9702 | 100151 | 204 | 97874 | 912 | 55 | 6.0307 | |
| gduggal-snapvard | SNP | ti | map_l250_m2_e0 | * | 86.8868 | 95.2476 | 79.8754 | 91.6627 | 4770 | 238 | 4743 | 1195 | 72 | 6.0251 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 37.3402 | 48.0263 | 30.5439 | 97.0255 | 73 | 79 | 73 | 166 | 10 | 6.0241 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.8249 | 99.4525 | 98.2052 | 75.0047 | 9083 | 50 | 9083 | 166 | 10 | 6.0241 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.8249 | 99.4525 | 98.2052 | 75.0047 | 9083 | 50 | 9083 | 166 | 10 | 6.0241 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 71.7070 | 89.4928 | 59.8187 | 91.4779 | 247 | 29 | 198 | 133 | 8 | 6.0150 | |
| bgallagher-sentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.3414 | 99.5344 | 99.1492 | 66.7959 | 30998 | 145 | 30998 | 266 | 16 | 6.0150 | |
| bgallagher-sentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.3414 | 99.5344 | 99.1492 | 66.7959 | 30998 | 145 | 30998 | 266 | 16 | 6.0150 | |
| gduggal-snapfb | SNP | * | HG002compoundhet | * | 83.3987 | 98.0094 | 72.5790 | 48.5976 | 25308 | 514 | 25579 | 9664 | 581 | 6.0120 | |
| gduggal-snapvard | SNP | tv | map_l150_m2_e1 | het | 88.7208 | 97.3054 | 81.5281 | 85.1064 | 7150 | 198 | 7128 | 1615 | 97 | 6.0062 | |
| gduggal-snapfb | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.0045 | 99.8174 | 98.2047 | 40.5930 | 2733 | 5 | 2735 | 50 | 3 | 6.0000 | |
| gduggal-snapplat | SNP | tv | lowcmp_SimpleRepeat_quadTR_51to200 | het | 36.1905 | 52.7778 | 27.5362 | 94.7767 | 19 | 17 | 19 | 50 | 3 | 6.0000 | |
| ltrigg-rtg1 | INDEL | * | map_siren | het | 97.4658 | 96.1180 | 98.8519 | 76.2761 | 4333 | 175 | 4305 | 50 | 3 | 6.0000 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 48.7545 | 54.7591 | 43.9366 | 94.6836 | 466 | 385 | 471 | 601 | 36 | 5.9900 | |
| gduggal-bwavard | SNP | ti | map_l150_m2_e1 | het | 93.6574 | 97.7641 | 89.8818 | 85.8419 | 12724 | 291 | 12623 | 1421 | 85 | 5.9817 | |