PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
6251-6300 / 86044 show all | |||||||||||||||
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 51.9110 | 37.2480 | 85.6132 | 63.2900 | 425 | 716 | 363 | 61 | 61 | 100.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | HG002compoundhet | hetalt | 96.6553 | 93.5940 | 99.9237 | 57.4617 | 10461 | 716 | 10476 | 8 | 8 | 100.0000 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 49.2494 | 39.3734 | 65.7385 | 28.0488 | 465 | 716 | 543 | 283 | 280 | 98.9399 | |
| gduggal-snapfb | SNP | * | map_l125_m2_e0 | het | 96.4331 | 97.5578 | 95.3341 | 73.4403 | 28602 | 716 | 28605 | 1400 | 602 | 43.0000 | |
| gduggal-snapfb | SNP | * | map_l125_m2_e1 | het | 96.4602 | 97.5843 | 95.3616 | 73.5220 | 28924 | 716 | 28927 | 1407 | 602 | 42.7861 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.6166 | 98.0433 | 99.1967 | 49.3156 | 35876 | 716 | 35813 | 290 | 255 | 87.9310 | |
| jmaeng-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.0763 | 92.8919 | 95.2913 | 68.9761 | 9357 | 716 | 9208 | 455 | 419 | 92.0879 | |
| qzeng-custom | SNP | ti | map_l250_m2_e0 | homalt | 73.9407 | 59.0623 | 98.8395 | 89.1089 | 1033 | 716 | 1022 | 12 | 11 | 91.6667 | |
| mlin-fermikit | INDEL | D16_PLUS | HG002compoundhet | * | 72.6643 | 69.4575 | 76.1816 | 36.8312 | 1626 | 715 | 1628 | 509 | 505 | 99.2141 | |
| qzeng-custom | INDEL | I16_PLUS | HG002compoundhet | * | 72.9335 | 66.6356 | 80.5461 | 47.8493 | 1428 | 715 | 1416 | 342 | 260 | 76.0234 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 47.0909 | 41.9643 | 53.6443 | 57.0892 | 517 | 715 | 552 | 477 | 405 | 84.9057 | |
| ltrigg-rtg1 | SNP | * | map_l125_m2_e1 | * | 99.1279 | 98.4852 | 99.7790 | 64.7783 | 46487 | 715 | 46495 | 103 | 28 | 27.1845 | |
| jmaeng-gatk | SNP | ti | map_l250_m0_e0 | * | 64.0900 | 47.8102 | 97.1810 | 98.0371 | 655 | 715 | 655 | 19 | 2 | 10.5263 | |
| gduggal-snapfb | SNP | * | map_l125_m1_e0 | het | 96.3552 | 97.4817 | 95.2545 | 71.3326 | 27677 | 715 | 27680 | 1379 | 599 | 43.4373 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 93.7369 | 88.2556 | 99.9442 | 59.1703 | 5373 | 715 | 5371 | 3 | 0 | 0.0000 | |
| gduggal-snapplat | SNP | tv | map_l125_m2_e0 | het | 93.2998 | 93.1527 | 93.4473 | 85.9522 | 9727 | 715 | 9726 | 682 | 352 | 51.6129 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 0.5563 | 0.2789 | 100.0000 | 85.7143 | 2 | 715 | 2 | 0 | 0 | ||
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 94.4780 | 89.9466 | 99.4903 | 27.1930 | 6397 | 715 | 6441 | 33 | 28 | 84.8485 | |
| hfeng-pmm2 | INDEL | * | HG002compoundhet | het | 86.3875 | 82.5598 | 90.5872 | 78.6150 | 3380 | 714 | 3147 | 327 | 317 | 96.9419 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.9367 | 98.4377 | 99.4408 | 75.9589 | 44988 | 714 | 44988 | 253 | 34 | 13.4387 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.9367 | 98.4377 | 99.4408 | 75.9589 | 44988 | 714 | 44988 | 253 | 34 | 13.4387 | |
| gduggal-bwavard | SNP | * | map_l150_m2_e0 | * | 94.9737 | 97.7584 | 92.3433 | 83.0785 | 31138 | 714 | 30742 | 2549 | 141 | 5.5316 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.8994 | 96.0896 | 99.7786 | 37.7218 | 17545 | 714 | 17577 | 39 | 37 | 94.8718 | |
| ltrigg-rtg1 | SNP | * | map_l125_m2_e0 | * | 99.1232 | 98.4718 | 99.7831 | 64.7024 | 46009 | 714 | 46011 | 100 | 28 | 28.0000 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 89.6870 | 88.2788 | 91.1408 | 63.5606 | 5370 | 713 | 5257 | 511 | 485 | 94.9119 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.9790 | 97.7713 | 98.1875 | 54.9936 | 31279 | 713 | 31203 | 576 | 562 | 97.5694 | |
| ckim-gatk | SNP | ti | map_l250_m0_e0 | * | 64.2229 | 47.9562 | 97.1893 | 97.9938 | 657 | 713 | 657 | 19 | 2 | 10.5263 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 83.3027 | 71.9181 | 98.9696 | 44.4076 | 1826 | 713 | 1825 | 19 | 17 | 89.4737 | |
| gduggal-snapplat | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 77.5375 | 77.3507 | 77.7253 | 87.2862 | 2435 | 713 | 2467 | 707 | 54 | 7.6379 | |
| ghariani-varprowl | SNP | * | map_l100_m2_e1 | * | 98.3564 | 99.0460 | 97.6764 | 72.0101 | 74024 | 713 | 74027 | 1761 | 324 | 18.3986 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 0.0000 | 18.2339 | 0.0000 | 0.0000 | 159 | 713 | 0 | 0 | 0 | ||
| gduggal-snapplat | INDEL | I1_5 | map_siren | * | 81.2847 | 76.3062 | 86.9582 | 90.3597 | 2293 | 712 | 2307 | 346 | 22 | 6.3584 | |
| ltrigg-rtg1 | SNP | * | map_l125_m1_e0 | * | 99.1092 | 98.4292 | 99.7987 | 62.1857 | 44615 | 712 | 44616 | 90 | 28 | 31.1111 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.2310 | 94.8350 | 97.6687 | 49.0598 | 13073 | 712 | 13071 | 312 | 308 | 98.7179 | |
| jmaeng-gatk | INDEL | D1_5 | HG002compoundhet | * | 95.7461 | 94.1888 | 97.3557 | 66.4684 | 11524 | 711 | 11524 | 313 | 309 | 98.7220 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 57.4257 | 40.5021 | 98.6434 | 49.1124 | 484 | 711 | 509 | 7 | 6 | 85.7143 | |
| anovak-vg | SNP | * | map_l250_m2_e1 | het | 71.9604 | 86.4932 | 61.6087 | 92.1600 | 4553 | 711 | 4519 | 2816 | 645 | 22.9048 | |
| mlin-fermikit | INDEL | D1_5 | * | homalt | 97.9967 | 98.5488 | 97.4507 | 61.3393 | 48216 | 710 | 48127 | 1259 | 1234 | 98.0143 | |
| ndellapenna-hhga | INDEL | I6_15 | * | hetalt | 95.2209 | 91.6969 | 99.0267 | 38.6839 | 7841 | 710 | 7834 | 77 | 70 | 90.9091 | |
| ndellapenna-hhga | INDEL | I6_15 | HG002compoundhet | hetalt | 95.3870 | 91.6833 | 99.4026 | 27.8852 | 7827 | 710 | 7820 | 47 | 42 | 89.3617 | |
| ghariani-varprowl | SNP | * | map_l100_m2_e0 | * | 98.3520 | 99.0401 | 97.6734 | 71.9819 | 73254 | 710 | 73257 | 1745 | 322 | 18.4527 | |
| gduggal-snapplat | SNP | tv | map_l125_m1_e0 | het | 93.1767 | 92.9883 | 93.3657 | 84.9692 | 9416 | 710 | 9415 | 669 | 344 | 51.4200 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.0097 | 98.4465 | 99.5795 | 70.5535 | 44992 | 710 | 44993 | 190 | 10 | 5.2632 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.0097 | 98.4465 | 99.5795 | 70.5535 | 44992 | 710 | 44993 | 190 | 10 | 5.2632 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 96.2751 | 93.2220 | 99.5351 | 28.3303 | 9765 | 710 | 9848 | 46 | 46 | 100.0000 | |
| ckim-vqsr | SNP | tv | map_l250_m1_e0 | homalt | 29.3121 | 17.1729 | 100.0000 | 97.3637 | 147 | 709 | 147 | 0 | 0 | ||
| anovak-vg | SNP | ti | map_l150_m0_e0 | homalt | 84.9295 | 74.3209 | 99.0709 | 76.2265 | 2052 | 709 | 2026 | 19 | 18 | 94.7368 | |
| gduggal-bwaplat | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 88.1535 | 79.4790 | 98.9534 | 72.5834 | 2746 | 709 | 2742 | 29 | 25 | 86.2069 | |
| gduggal-bwavard | SNP | * | map_l100_m1_e0 | homalt | 98.6152 | 97.3744 | 99.8881 | 60.4751 | 26294 | 709 | 25878 | 29 | 23 | 79.3103 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 18.9437 | 10.5927 | 89.5161 | 64.6724 | 84 | 709 | 111 | 13 | 9 | 69.2308 | |