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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
1401-1450 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | * | * | homalt | 98.3570 | 98.7793 | 97.9383 | 51.6092 | 123644 | 1528 | 123655 | 2603 | 1560 | 59.9308 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 90.7947 | 97.9343 | 84.6254 | 85.1417 | 14270 | 301 | 14322 | 2602 | 202 | 7.7633 | |
| jpowers-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 90.7947 | 97.9343 | 84.6254 | 85.1417 | 14270 | 301 | 14322 | 2602 | 202 | 7.7633 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 55.8126 | 45.6817 | 71.7174 | 42.4460 | 2888 | 3434 | 6598 | 2602 | 2576 | 99.0008 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 55.8126 | 45.6817 | 71.7174 | 42.4460 | 2888 | 3434 | 6598 | 2602 | 2576 | 99.0008 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 93.2309 | 99.3718 | 87.8049 | 80.7052 | 19456 | 123 | 18720 | 2600 | 87 | 3.3462 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 93.2309 | 99.3718 | 87.8049 | 80.7052 | 19456 | 123 | 18720 | 2600 | 87 | 3.3462 | |
| ciseli-custom | SNP | ti | map_l100_m0_e0 | * | 82.2845 | 78.2555 | 86.7509 | 73.7443 | 17037 | 4734 | 17024 | 2600 | 753 | 28.9615 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 67.7487 | 63.3008 | 72.8688 | 42.9423 | 7015 | 4067 | 6975 | 2597 | 2576 | 99.1914 | |
| jlack-gatk | INDEL | * | HG002compoundhet | * | 91.0082 | 90.7410 | 91.2769 | 62.3551 | 27186 | 2774 | 27070 | 2587 | 2465 | 95.2841 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 76.6099 | 94.2733 | 64.5210 | 69.8327 | 4560 | 277 | 4701 | 2585 | 206 | 7.9691 | |
| ciseli-custom | SNP | ti | map_l125_m2_e0 | het | 77.8322 | 72.4359 | 84.0972 | 81.0572 | 13673 | 5203 | 13670 | 2585 | 72 | 2.7853 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 67.4881 | 62.1770 | 73.7913 | 70.7459 | 5198 | 3162 | 7250 | 2575 | 1897 | 73.6699 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 67.4881 | 62.1770 | 73.7913 | 70.7459 | 5198 | 3162 | 7250 | 2575 | 1897 | 73.6699 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 41.5500 | 37.4241 | 46.6984 | 73.3990 | 2220 | 3712 | 2256 | 2575 | 311 | 12.0777 | |
| ciseli-custom | INDEL | I6_15 | * | homalt | 49.3008 | 46.2895 | 52.7313 | 38.8345 | 2888 | 3351 | 2867 | 2570 | 2475 | 96.3035 | |
| anovak-vg | SNP | tv | * | homalt | 99.0679 | 98.8237 | 99.3132 | 19.4559 | 372687 | 4436 | 371341 | 2568 | 1960 | 76.3240 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 94.5891 | 93.3138 | 95.8997 | 71.5881 | 60123 | 4308 | 60061 | 2568 | 2492 | 97.0405 | |
| jli-custom | SNP | * | * | * | 99.9382 | 99.9603 | 99.9160 | 18.2994 | 3053407 | 1212 | 3053302 | 2566 | 212 | 8.2619 | |
| gduggal-bwavard | SNP | * | map_l100_m0_e0 | * | 94.9074 | 97.4514 | 92.4929 | 77.7735 | 32004 | 837 | 31615 | 2566 | 141 | 5.4949 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 70.5032 | 65.2830 | 76.6308 | 62.2986 | 6794 | 3613 | 8411 | 2565 | 1113 | 43.3918 | |
| mlin-fermikit | SNP | * | map_l100_m0_e0 | homalt | 62.9127 | 56.0069 | 71.7609 | 49.3097 | 6508 | 5112 | 6508 | 2561 | 2415 | 94.2991 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 83.6741 | 97.8739 | 73.0725 | 38.0893 | 6537 | 142 | 6947 | 2560 | 2496 | 97.5000 | |
| gduggal-bwavard | SNP | * | map_l150_m2_e1 | * | 95.0047 | 97.7678 | 92.3934 | 83.1339 | 31491 | 719 | 31083 | 2559 | 143 | 5.5881 | |
| qzeng-custom | INDEL | I6_15 | * | * | 88.1501 | 86.9073 | 89.4289 | 48.1019 | 21573 | 3250 | 21640 | 2558 | 1057 | 41.3213 | |
| gduggal-bwafb | INDEL | * | HG002compoundhet | homalt | 33.7522 | 95.9184 | 20.4793 | 75.1027 | 658 | 28 | 658 | 2555 | 2524 | 98.7867 | |
| jlack-gatk | SNP | * | map_l100_m0_e0 | * | 95.5864 | 98.6663 | 92.6930 | 78.0628 | 32403 | 438 | 32399 | 2554 | 207 | 8.1049 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 88.4231 | 97.9687 | 80.5725 | 52.0129 | 10514 | 218 | 10584 | 2552 | 124 | 4.8589 | |
| jpowers-varprowl | SNP | * | HG002compoundhet | homalt | 89.3414 | 99.8238 | 80.8512 | 43.1364 | 10763 | 19 | 10771 | 2551 | 2008 | 78.7142 | |
| gduggal-bwavard | SNP | * | map_l150_m2_e0 | * | 94.9737 | 97.7584 | 92.3433 | 83.0785 | 31138 | 714 | 30742 | 2549 | 141 | 5.5316 | |
| ciseli-custom | SNP | ti | HG002compoundhet | homalt | 81.8243 | 93.1296 | 72.9667 | 35.5461 | 6886 | 508 | 6872 | 2546 | 564 | 22.1524 | |
| gduggal-bwavard | SNP | * | map_l100_m0_e0 | het | 93.1046 | 97.6656 | 88.9506 | 81.2913 | 20710 | 495 | 20488 | 2545 | 125 | 4.9116 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 91.2302 | 99.3206 | 84.3587 | 81.4184 | 14472 | 99 | 13726 | 2545 | 73 | 2.8684 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 91.2302 | 99.3206 | 84.3587 | 81.4184 | 14472 | 99 | 13726 | 2545 | 73 | 2.8684 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 77.4069 | 76.4295 | 78.4096 | 44.8000 | 9076 | 2799 | 9239 | 2544 | 1839 | 72.2877 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 92.1810 | 97.5637 | 87.3613 | 59.2270 | 17740 | 443 | 17557 | 2540 | 107 | 4.2126 | |
| gduggal-bwavard | SNP | * | map_l150_m2_e1 | het | 93.0515 | 97.9865 | 88.5898 | 85.8074 | 19953 | 410 | 19713 | 2539 | 128 | 5.0414 | |
| ghariani-varprowl | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 95.1859 | 99.0236 | 91.6345 | 64.6332 | 27686 | 273 | 27790 | 2537 | 281 | 11.0761 | |
| gduggal-snapfb | SNP | * | map_siren | * | 98.4685 | 98.6644 | 98.2733 | 60.5270 | 144275 | 1953 | 144278 | 2535 | 801 | 31.5976 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 24.5228 | 33.9401 | 19.1964 | 80.6408 | 578 | 1125 | 602 | 2534 | 12 | 0.4736 | |
| gduggal-snapvard | SNP | tv | HG002complexvar | het | 97.6940 | 97.1254 | 98.2693 | 25.4121 | 146401 | 4333 | 143709 | 2531 | 919 | 36.3098 | |
| anovak-vg | SNP | * | HG002complexvar | homalt | 98.2895 | 97.5091 | 99.0824 | 19.5966 | 281387 | 7188 | 273293 | 2531 | 2130 | 84.1565 | |
| jlack-gatk | SNP | * | map_l100_m0_e0 | het | 93.8309 | 98.9295 | 89.2321 | 81.9092 | 20978 | 227 | 20974 | 2531 | 189 | 7.4674 | |
| ciseli-custom | SNP | ti | map_l125_m1_e0 | het | 77.4977 | 72.0300 | 83.8636 | 79.8833 | 13157 | 5109 | 13154 | 2531 | 72 | 2.8447 | |
| gduggal-bwavard | SNP | * | map_l150_m1_e0 | * | 94.8478 | 97.7523 | 92.1110 | 81.9172 | 29921 | 688 | 29540 | 2530 | 139 | 5.4941 | |
| jpowers-varprowl | INDEL | * | * | homalt | 92.2554 | 87.3566 | 97.7363 | 45.3284 | 109346 | 15826 | 109233 | 2530 | 2235 | 88.3399 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 75.3753 | 83.0063 | 69.0293 | 65.5447 | 6980 | 1429 | 5639 | 2530 | 425 | 16.7984 | |
| gduggal-bwavard | SNP | * | map_l150_m2_e0 | het | 93.0021 | 97.9685 | 88.5150 | 85.7521 | 19724 | 409 | 19491 | 2529 | 126 | 4.9822 | |
| gduggal-bwaplat | SNP | ti | HG002compoundhet | * | 89.0817 | 91.8641 | 86.4629 | 42.2720 | 16056 | 1422 | 16121 | 2524 | 263 | 10.4200 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 42.4079 | 40.5785 | 44.4101 | 31.8353 | 1417 | 2075 | 2014 | 2521 | 2293 | 90.9560 | |