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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
38001-38050 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 83.9902 | 73.3509 | 98.2394 | 46.3138 | 278 | 101 | 279 | 5 | 4 | 80.0000 | |
| gduggal-bwavard | SNP | ti | HG002compoundhet | het | 83.9896 | 84.9027 | 83.0960 | 44.5406 | 8070 | 1435 | 9104 | 1852 | 1542 | 83.2613 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 83.9877 | 74.1728 | 96.7962 | 69.7744 | 4954 | 1725 | 4955 | 164 | 54 | 32.9268 | |
| anovak-vg | SNP | * | map_l250_m2_e0 | homalt | 83.9868 | 72.7476 | 99.3333 | 88.4225 | 1954 | 732 | 1937 | 13 | 9 | 69.2308 | |
| ghariani-varprowl | INDEL | D6_15 | HG002complexvar | homalt | 83.9832 | 79.7263 | 88.7204 | 58.7246 | 932 | 237 | 936 | 119 | 92 | 77.3109 | |
| jmaeng-gatk | SNP | tv | map_l150_m2_e0 | het | 83.9830 | 74.9448 | 95.5001 | 91.0642 | 5435 | 1817 | 5433 | 256 | 6 | 2.3438 | |
| qzeng-custom | INDEL | * | map_l100_m1_e0 | * | 83.9800 | 79.0296 | 89.5920 | 87.4621 | 2834 | 752 | 3667 | 426 | 66 | 15.4930 | |
| ckim-gatk | SNP | tv | map_l125_m2_e1 | * | 83.9775 | 73.9449 | 97.1598 | 86.1410 | 12317 | 4340 | 12315 | 360 | 15 | 4.1667 | |
| qzeng-custom | SNP | * | map_l125_m2_e1 | * | 83.9768 | 73.7003 | 97.5835 | 83.0865 | 34788 | 12414 | 34406 | 852 | 714 | 83.8028 | |
| asubramanian-gatk | INDEL | I1_5 | map_l150_m1_e0 | het | 83.9718 | 75.2508 | 94.9791 | 93.8067 | 225 | 74 | 227 | 12 | 1 | 8.3333 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 83.9657 | 75.7143 | 94.2356 | 75.6856 | 371 | 119 | 376 | 23 | 20 | 86.9565 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 83.9654 | 89.6725 | 78.9413 | 89.5816 | 712 | 82 | 686 | 183 | 64 | 34.9727 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 83.9649 | 79.7856 | 88.6063 | 45.8996 | 25525 | 6467 | 29373 | 3777 | 2366 | 62.6423 | |
| gduggal-bwavard | INDEL | D1_5 | map_l250_m2_e1 | * | 83.9566 | 96.2162 | 74.4681 | 95.7604 | 178 | 7 | 175 | 60 | 4 | 6.6667 | |
| ckim-gatk | SNP | * | map_l100_m2_e0 | homalt | 83.9525 | 72.3722 | 99.9448 | 68.4557 | 19919 | 7604 | 19919 | 11 | 7 | 63.6364 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 83.9506 | 73.9130 | 97.1429 | 57.8313 | 68 | 24 | 68 | 2 | 1 | 50.0000 | |
| ghariani-varprowl | INDEL | D6_15 | map_l125_m2_e1 | het | 83.9506 | 95.7746 | 74.7253 | 93.4391 | 68 | 3 | 68 | 23 | 21 | 91.3043 | |
| ckim-isaac | INDEL | I1_5 | map_l100_m2_e1 | hetalt | 83.9506 | 75.5556 | 94.4444 | 88.0795 | 34 | 11 | 34 | 2 | 2 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 83.9506 | 73.9130 | 97.1429 | 57.8313 | 68 | 24 | 68 | 2 | 1 | 50.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 83.9484 | 89.1626 | 79.3103 | 79.1581 | 543 | 66 | 483 | 126 | 115 | 91.2698 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 83.9473 | 78.4628 | 90.2562 | 82.3482 | 1858 | 510 | 1973 | 213 | 125 | 58.6854 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 83.9467 | 95.9574 | 74.6082 | 62.8854 | 451 | 19 | 476 | 162 | 26 | 16.0494 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 83.9455 | 85.0094 | 82.9080 | 59.5221 | 2257 | 398 | 3216 | 663 | 302 | 45.5505 | |
| ckim-isaac | INDEL | * | map_l100_m1_e0 | het | 83.9386 | 73.4228 | 97.9701 | 85.4069 | 1641 | 594 | 1641 | 34 | 14 | 41.1765 | |
| asubramanian-gatk | INDEL | * | map_l250_m2_e0 | het | 83.9329 | 83.3333 | 84.5411 | 97.4454 | 175 | 35 | 175 | 32 | 3 | 9.3750 | |
| ckim-gatk | SNP | tv | map_l150_m2_e0 | het | 83.9328 | 74.7380 | 95.7075 | 90.8782 | 5420 | 1832 | 5418 | 243 | 8 | 3.2922 | |
| raldana-dualsentieon | INDEL | * | HG002compoundhet | het | 83.9323 | 82.2912 | 85.6402 | 78.9688 | 3369 | 725 | 3137 | 526 | 520 | 98.8593 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 83.9311 | 72.3642 | 99.8993 | 31.6116 | 906 | 346 | 992 | 1 | 1 | 100.0000 | |
| qzeng-custom | SNP | tv | map_l100_m0_e0 | homalt | 83.9304 | 72.9329 | 98.8335 | 64.8615 | 2805 | 1041 | 2796 | 33 | 33 | 100.0000 | |
| jpowers-varprowl | INDEL | D6_15 | map_l100_m2_e0 | homalt | 83.9286 | 72.3077 | 100.0000 | 81.8533 | 47 | 18 | 47 | 0 | 0 | ||
| ghariani-varprowl | INDEL | D6_15 | map_l100_m2_e0 | homalt | 83.9286 | 72.3077 | 100.0000 | 82.0611 | 47 | 18 | 47 | 0 | 0 | ||
| qzeng-custom | INDEL | D1_5 | map_l150_m0_e0 | het | 83.9237 | 76.2376 | 93.3333 | 96.6468 | 154 | 48 | 168 | 12 | 11 | 91.6667 | |
| ghariani-varprowl | INDEL | D1_5 | map_l250_m1_e0 | het | 83.9216 | 96.3964 | 74.3056 | 96.7814 | 107 | 4 | 107 | 37 | 3 | 8.1081 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 83.9148 | 73.4651 | 97.8302 | 47.7704 | 706 | 255 | 2074 | 46 | 36 | 78.2609 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 83.9138 | 82.9573 | 84.8926 | 46.2434 | 18458 | 3792 | 18538 | 3299 | 3068 | 92.9979 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 83.9078 | 94.1790 | 75.6567 | 81.6542 | 5873 | 363 | 5818 | 1872 | 118 | 6.3034 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 83.9050 | 98.7578 | 72.9358 | 36.8116 | 159 | 2 | 159 | 59 | 59 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 83.9013 | 72.7088 | 99.1667 | 31.9471 | 357 | 134 | 357 | 3 | 3 | 100.0000 | |
| eyeh-varpipe | INDEL | I6_15 | HG002complexvar | het | 83.9009 | 81.8684 | 86.0369 | 46.7354 | 1928 | 427 | 1867 | 303 | 298 | 98.3498 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 83.9007 | 77.8470 | 90.9754 | 41.3740 | 8627 | 2455 | 9355 | 928 | 916 | 98.7069 | |
| ckim-isaac | INDEL | D1_5 | map_l100_m0_e0 | hetalt | 83.8983 | 78.5714 | 90.0000 | 92.5373 | 11 | 3 | 9 | 1 | 1 | 100.0000 | |
| gduggal-snapplat | INDEL | I1_5 | HG002complexvar | homalt | 83.8960 | 77.5134 | 91.4241 | 57.4270 | 10424 | 3024 | 10586 | 993 | 140 | 14.0987 | |
| jmaeng-gatk | SNP | tv | map_l125_m2_e0 | * | 83.8941 | 73.9220 | 96.9762 | 86.2792 | 12189 | 4300 | 12187 | 380 | 13 | 3.4211 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 83.8931 | 74.1034 | 96.6631 | 64.8282 | 16488 | 5762 | 16483 | 569 | 336 | 59.0510 | |
| gduggal-snapplat | INDEL | D1_5 | map_l150_m2_e0 | het | 83.8926 | 81.3230 | 86.6300 | 94.6747 | 418 | 96 | 473 | 73 | 17 | 23.2877 | |
| gduggal-bwaplat | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 83.8912 | 73.6757 | 97.3956 | 82.4238 | 35564 | 12707 | 35564 | 951 | 276 | 29.0221 | |
| ckim-isaac | INDEL | D1_5 | map_l100_m1_e0 | * | 83.8870 | 73.1061 | 98.3977 | 82.4582 | 1351 | 497 | 1351 | 22 | 10 | 45.4545 | |
| qzeng-custom | INDEL | * | map_l125_m2_e1 | homalt | 83.8858 | 74.2894 | 96.3291 | 86.5211 | 575 | 199 | 761 | 29 | 11 | 37.9310 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 83.8820 | 73.9003 | 96.9811 | 55.3120 | 252 | 89 | 257 | 8 | 7 | 87.5000 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 83.8820 | 73.9003 | 96.9811 | 55.3872 | 252 | 89 | 257 | 8 | 7 | 87.5000 | |