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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
33951-34000 / 86044 show all | |||||||||||||||
| gduggal-snapvard | SNP | * | map_l125_m2_e1 | * | 93.7321 | 96.5489 | 91.0750 | 79.3697 | 45573 | 1629 | 44971 | 4407 | 338 | 7.6696 | |
| ghariani-varprowl | SNP | ti | * | * | 99.5372 | 99.8784 | 99.1982 | 22.5770 | 2082957 | 2536 | 2083186 | 16837 | 1291 | 7.6676 | |
| gduggal-snapplat | SNP | ti | HG002compoundhet | het | 78.6871 | 89.5844 | 70.1534 | 57.2786 | 8515 | 990 | 8645 | 3678 | 282 | 7.6672 | |
| jlack-gatk | SNP | * | map_l250_m1_e0 | * | 93.2444 | 97.7569 | 89.1302 | 92.5027 | 7060 | 162 | 7060 | 861 | 66 | 7.6655 | |
| gduggal-snapvard | SNP | * | map_l125_m2_e0 | * | 93.7014 | 96.5392 | 91.0256 | 79.3194 | 45106 | 1617 | 44517 | 4389 | 336 | 7.6555 | |
| gduggal-snapvard | SNP | * | map_l100_m2_e0 | het | 93.3360 | 96.7693 | 90.1379 | 78.6381 | 44900 | 1499 | 44319 | 4849 | 371 | 7.6511 | |
| hfeng-pmm1 | SNP | * | * | het | 99.9238 | 99.8812 | 99.9665 | 18.1036 | 1871361 | 2226 | 1871236 | 628 | 48 | 7.6433 | |
| gduggal-snapfb | SNP | * | segdup | * | 98.9601 | 99.4941 | 98.4319 | 91.5712 | 27925 | 142 | 27933 | 445 | 34 | 7.6405 | |
| gduggal-snapvard | SNP | * | map_l100_m1_e0 | het | 93.2304 | 96.7393 | 89.9672 | 77.3983 | 43880 | 1479 | 43312 | 4830 | 369 | 7.6398 | |
| gduggal-snapplat | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 77.5375 | 77.3507 | 77.7253 | 87.2862 | 2435 | 713 | 2467 | 707 | 54 | 7.6379 | |
| bgallagher-sentieon | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.7144 | 99.8963 | 99.5331 | 54.5778 | 27930 | 29 | 27929 | 131 | 10 | 7.6336 | |
| jlack-gatk | SNP | * | map_l100_m2_e1 | * | 97.0682 | 99.1343 | 95.0864 | 75.5739 | 74090 | 647 | 74079 | 3828 | 292 | 7.6280 | |
| jli-custom | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4506 | 99.7507 | 99.1523 | 64.1117 | 27609 | 69 | 27604 | 236 | 18 | 7.6271 | |
| gduggal-snapvard | SNP | * | map_l125_m1_e0 | * | 93.5846 | 96.5275 | 90.8158 | 77.9328 | 43753 | 1574 | 43182 | 4367 | 333 | 7.6254 | |
| jlack-gatk | SNP | * | map_l100_m2_e0 | * | 97.0473 | 99.1293 | 95.0510 | 75.5620 | 73320 | 644 | 73309 | 3817 | 291 | 7.6238 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.9588 | 99.0919 | 98.8260 | 75.8275 | 45287 | 415 | 45287 | 538 | 41 | 7.6208 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.9588 | 99.0919 | 98.8260 | 75.8275 | 45287 | 415 | 45287 | 538 | 41 | 7.6208 | |
| gduggal-bwavard | INDEL | C16_PLUS | * | het | 0.0000 | 0.0000 | 27.5862 | 93.9734 | 0 | 0 | 40 | 105 | 8 | 7.6191 | |
| gduggal-bwavard | SNP | ti | map_l100_m2_e0 | het | 95.6400 | 97.2699 | 94.0639 | 78.7568 | 29786 | 836 | 29537 | 1864 | 142 | 7.6180 | |
| jlack-gatk | SNP | * | map_l125_m2_e0 | * | 96.1886 | 98.8828 | 93.6372 | 80.3034 | 46201 | 522 | 46195 | 3139 | 239 | 7.6139 | |
| ckim-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.4847 | 99.7826 | 99.1887 | 63.5467 | 35342 | 77 | 35331 | 289 | 22 | 7.6125 | |
| jlack-gatk | SNP | * | map_l125_m2_e1 | * | 96.2112 | 98.8920 | 93.6720 | 80.3444 | 46679 | 523 | 46673 | 3153 | 240 | 7.6118 | |
| 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 | |
| ckim-gatk | SNP | * | map_l125_m2_e0 | * | 84.6410 | 74.5907 | 97.8215 | 85.1222 | 34851 | 11872 | 34845 | 776 | 59 | 7.6031 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.7915 | 98.1506 | 89.8032 | 88.0725 | 1486 | 28 | 1506 | 171 | 13 | 7.6023 | |
| eyeh-varpipe | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.1915 | 99.5930 | 94.9031 | 45.9580 | 18109 | 74 | 17428 | 936 | 71 | 7.5855 | |
| gduggal-bwafb | SNP | ti | * | het | 99.7363 | 99.8649 | 99.6080 | 22.2231 | 1280165 | 1732 | 1280284 | 5038 | 382 | 7.5824 | |
| asubramanian-gatk | SNP | ti | * | het | 99.0688 | 98.2225 | 99.9298 | 21.0842 | 1259105 | 22786 | 1259055 | 884 | 67 | 7.5792 | |
| jmaeng-gatk | SNP | * | map_l150_m1_e0 | * | 80.0329 | 67.8918 | 97.4620 | 88.1625 | 20781 | 9828 | 20775 | 541 | 41 | 7.5786 | |
| hfeng-pmm3 | SNP | tv | map_l100_m2_e1 | het | 99.5354 | 99.4855 | 99.5854 | 67.1367 | 15856 | 82 | 15852 | 66 | 5 | 7.5758 | |
| hfeng-pmm2 | INDEL | * | map_siren | het | 98.6272 | 98.7134 | 98.5411 | 82.4078 | 4450 | 58 | 4458 | 66 | 5 | 7.5758 | |
| ckim-gatk | INDEL | D1_5 | map_l150_m1_e0 | * | 94.8406 | 98.4658 | 91.4729 | 91.9576 | 706 | 11 | 708 | 66 | 5 | 7.5758 | |
| jpowers-varprowl | SNP | ti | segdup | * | 98.3696 | 99.2783 | 97.4774 | 91.2225 | 19396 | 141 | 19398 | 502 | 38 | 7.5697 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 95.6108 | 99.3560 | 92.1377 | 74.6935 | 2160 | 14 | 2168 | 185 | 14 | 7.5676 | |
| eyeh-varpipe | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.3719 | 99.6869 | 95.1620 | 62.9872 | 17513 | 55 | 16385 | 833 | 63 | 7.5630 | |
| jlack-gatk | SNP | * | map_l250_m2_e1 | * | 93.5343 | 97.8966 | 89.5442 | 92.9358 | 7819 | 168 | 7819 | 913 | 69 | 7.5575 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.0661 | 99.2298 | 98.9030 | 75.7127 | 45350 | 352 | 45350 | 503 | 38 | 7.5547 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.0661 | 99.2298 | 98.9030 | 75.7127 | 45350 | 352 | 45350 | 503 | 38 | 7.5547 | |
| eyeh-varpipe | SNP | tv | map_l250_m1_e0 | het | 98.2708 | 99.4964 | 97.0751 | 90.7442 | 1778 | 9 | 1759 | 53 | 4 | 7.5472 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 9.4017 | 83.5211 | 0 | 0 | 22 | 212 | 16 | 7.5472 | |
| gduggal-snapvard | SNP | ti | map_l150_m2_e1 | het | 90.0889 | 96.5271 | 84.4559 | 85.0397 | 12563 | 452 | 12464 | 2294 | 173 | 7.5414 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.3617 | 99.6215 | 99.1032 | 69.4732 | 45529 | 173 | 45529 | 412 | 31 | 7.5243 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.3617 | 99.6215 | 99.1032 | 69.4732 | 45529 | 173 | 45529 | 412 | 31 | 7.5243 | |
| ckim-isaac | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.7656 | 94.6334 | 98.9961 | 51.3619 | 16893 | 958 | 17059 | 173 | 13 | 7.5145 | |
| gduggal-snapvard | SNP | * | map_l100_m0_e0 | * | 92.6283 | 96.0476 | 89.4441 | 77.2407 | 31543 | 1298 | 31148 | 3676 | 276 | 7.5082 | |
| gduggal-bwavard | SNP | ti | map_l100_m1_e0 | het | 95.5858 | 97.2580 | 93.9701 | 77.5354 | 29121 | 821 | 28877 | 1853 | 139 | 7.5014 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 72.7179 | 89.8551 | 61.0706 | 92.0580 | 248 | 28 | 251 | 160 | 12 | 7.5000 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 74.2076 | 65.4545 | 85.6631 | 71.8750 | 252 | 133 | 239 | 40 | 3 | 7.5000 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4714 | 99.5136 | 99.4293 | 48.5634 | 27823 | 136 | 27875 | 160 | 12 | 7.5000 | |
| qzeng-custom | INDEL | I6_15 | map_l125_m1_e0 | * | 66.0697 | 66.0377 | 66.1017 | 87.0756 | 35 | 18 | 78 | 40 | 3 | 7.5000 | |