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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
58851-58900 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | SNP | ti | map_l100_m0_e0 | * | 72.8908 | 57.5582 | 99.3581 | 86.0136 | 12531 | 9240 | 12537 | 81 | 26 | 32.0988 | |
| gduggal-snapfb | SNP | tv | map_l100_m1_e0 | * | 97.5300 | 97.9838 | 97.0805 | 69.8683 | 24007 | 494 | 24008 | 722 | 232 | 32.1330 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 60.0266 | 74.1071 | 50.4425 | 79.7491 | 83 | 29 | 57 | 56 | 18 | 32.1429 | |
| gduggal-snapvard | SNP | * | segdup | * | 98.2794 | 97.3955 | 99.1795 | 93.1728 | 27336 | 731 | 27076 | 224 | 72 | 32.1429 | |
| gduggal-bwaplat | SNP | * | map_l100_m0_e0 | * | 72.1141 | 56.5817 | 99.4011 | 87.0646 | 18582 | 14259 | 18588 | 112 | 36 | 32.1429 | |
| gduggal-bwafb | SNP | ti | map_l250_m0_e0 | * | 97.5073 | 97.0803 | 97.9381 | 93.5330 | 1330 | 40 | 1330 | 28 | 9 | 32.1429 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 86.3919 | 88.4669 | 84.4120 | 88.2444 | 1258 | 164 | 1213 | 224 | 72 | 32.1429 | |
| qzeng-custom | INDEL | D6_15 | segdup | * | 89.7775 | 93.1937 | 86.6029 | 93.7519 | 178 | 13 | 181 | 28 | 9 | 32.1429 | |
| astatham-gatk | SNP | ti | map_l150_m0_e0 | het | 89.8677 | 82.0483 | 99.3346 | 85.7819 | 4182 | 915 | 4180 | 28 | 9 | 32.1429 | |
| hfeng-pmm1 | SNP | tv | HG002complexvar | het | 99.7636 | 99.5469 | 99.9813 | 20.8221 | 150048 | 683 | 149969 | 28 | 9 | 32.1429 | |
| dgrover-gatk | INDEL | I16_PLUS | * | het | 98.6296 | 98.3076 | 98.9537 | 76.0151 | 2672 | 46 | 2648 | 28 | 9 | 32.1429 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 92.4298 | 90.2778 | 94.6869 | 59.3991 | 520 | 56 | 499 | 28 | 9 | 32.1429 | |
| ckim-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.8872 | 98.7069 | 99.0682 | 69.8958 | 2977 | 39 | 2977 | 28 | 9 | 32.1429 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.5417 | 99.5043 | 99.5791 | 77.6913 | 6624 | 33 | 6624 | 28 | 9 | 32.1429 | |
| ciseli-custom | INDEL | D1_5 | map_l150_m0_e0 | * | 71.0670 | 65.7439 | 77.3279 | 94.6386 | 190 | 99 | 191 | 56 | 18 | 32.1429 | |
| ckim-isaac | INDEL | I16_PLUS | HG002complexvar | * | 52.2963 | 39.2666 | 78.2675 | 62.9505 | 514 | 795 | 515 | 143 | 46 | 32.1678 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 12.3870 | 7.8603 | 29.2079 | 60.1578 | 54 | 633 | 59 | 143 | 46 | 32.1678 | |
| ghariani-varprowl | INDEL | * | map_l125_m2_e0 | het | 91.3175 | 97.9152 | 85.5528 | 92.0328 | 1362 | 29 | 1362 | 230 | 74 | 32.1739 | |
| anovak-vg | INDEL | D1_5 | map_l125_m1_e0 | het | 81.8860 | 88.2920 | 76.3466 | 87.4430 | 641 | 85 | 652 | 202 | 65 | 32.1782 | |
| ndellapenna-hhga | SNP | tv | map_siren | het | 99.3169 | 98.8465 | 99.7918 | 55.1017 | 28279 | 330 | 28279 | 59 | 19 | 32.2034 | |
| gduggal-bwaplat | SNP | * | map_l125_m0_e0 | het | 67.0117 | 50.6238 | 99.0887 | 93.0436 | 6411 | 6253 | 6415 | 59 | 19 | 32.2034 | |
| ciseli-custom | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 89.3094 | 98.5239 | 81.6710 | 71.7637 | 3404 | 51 | 3431 | 770 | 248 | 32.2078 | |
| egarrison-hhga | INDEL | D6_15 | * | homalt | 96.8232 | 97.8027 | 95.8630 | 51.8789 | 6187 | 139 | 6187 | 267 | 86 | 32.2097 | |
| ghariani-varprowl | SNP | * | HG002compoundhet | * | 85.5640 | 92.8588 | 79.3318 | 55.0838 | 23978 | 1844 | 24220 | 6310 | 2033 | 32.2187 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 96.6577 | 96.6080 | 96.7075 | 54.0122 | 14269 | 501 | 14216 | 484 | 156 | 32.2314 | |
| gduggal-snapvard | INDEL | D1_5 | map_l125_m1_e0 | * | 87.8220 | 95.5882 | 81.2230 | 87.7784 | 1040 | 48 | 1315 | 304 | 98 | 32.2368 | |
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.7580 | 97.6793 | 97.8367 | 88.4863 | 1389 | 33 | 1402 | 31 | 10 | 32.2581 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.5178 | 99.1870 | 97.8576 | 69.7090 | 1342 | 11 | 1416 | 31 | 10 | 32.2581 | |
| egarrison-hhga | INDEL | * | map_l125_m1_e0 | het | 97.6831 | 97.6779 | 97.6883 | 86.3886 | 1304 | 31 | 1310 | 31 | 10 | 32.2581 | |
| egarrison-hhga | INDEL | * | map_l125_m2_e0 | het | 97.7762 | 97.7714 | 97.7810 | 87.2105 | 1360 | 31 | 1366 | 31 | 10 | 32.2581 | |
| gduggal-bwaplat | SNP | tv | map_l100_m0_e0 | * | 70.5375 | 54.6373 | 99.4907 | 88.8156 | 6056 | 5028 | 6056 | 31 | 10 | 32.2581 | |
| gduggal-bwaplat | SNP | tv | map_l100_m0_e0 | het | 74.3090 | 59.3741 | 99.2822 | 90.5912 | 4288 | 2934 | 4288 | 31 | 10 | 32.2581 | |
| jli-custom | INDEL | * | map_l100_m0_e0 | * | 97.9520 | 97.8887 | 98.0154 | 84.8379 | 1530 | 33 | 1531 | 31 | 10 | 32.2581 | |
| gduggal-bwaplat | SNP | ti | map_l150_m1_e0 | het | 74.1845 | 59.2724 | 99.1222 | 91.2737 | 7332 | 5038 | 7340 | 65 | 21 | 32.3077 | |
| gduggal-snapfb | INDEL | * | map_l150_m0_e0 | * | 91.9264 | 90.6615 | 93.2271 | 91.6942 | 466 | 48 | 468 | 34 | 11 | 32.3529 | |
| ghariani-varprowl | INDEL | * | map_l125_m1_e0 | * | 91.7859 | 94.3996 | 89.3130 | 93.6193 | 1989 | 118 | 1989 | 238 | 77 | 32.3529 | |
| ltrigg-rtg1 | SNP | * | map_l150_m2_e1 | * | 98.9386 | 98.1062 | 99.7853 | 68.9443 | 31600 | 610 | 31606 | 68 | 22 | 32.3529 | |
| astatham-gatk | INDEL | I16_PLUS | * | het | 98.4446 | 98.1604 | 98.7304 | 75.7581 | 2668 | 50 | 2644 | 34 | 11 | 32.3529 | |
| bgallagher-sentieon | SNP | * | HG002compoundhet | het | 99.7460 | 99.7320 | 99.7601 | 45.7386 | 14140 | 38 | 14138 | 34 | 11 | 32.3529 | |
| jli-custom | SNP | * | map_l125_m2_e0 | * | 99.3286 | 99.1032 | 99.5549 | 68.8474 | 46304 | 419 | 46301 | 207 | 67 | 32.3671 | |
| jli-custom | SNP | * | map_l125_m2_e1 | * | 99.3354 | 99.1123 | 99.5595 | 68.9095 | 46783 | 419 | 46780 | 207 | 67 | 32.3671 | |
| ghariani-varprowl | INDEL | * | map_l125_m2_e0 | * | 91.8919 | 94.4444 | 89.4737 | 94.0645 | 2074 | 122 | 2074 | 244 | 79 | 32.3770 | |
| ciseli-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 95.3693 | 99.2326 | 91.7955 | 63.9797 | 20044 | 155 | 20005 | 1788 | 579 | 32.3826 | |
| jli-custom | SNP | tv | map_l150_m1_e0 | * | 99.0626 | 98.7812 | 99.3456 | 71.0917 | 10779 | 133 | 10778 | 71 | 23 | 32.3944 | |
| asubramanian-gatk | SNP | ti | map_siren | * | 78.3158 | 64.4054 | 99.8903 | 68.2204 | 64634 | 35721 | 64622 | 71 | 23 | 32.3944 | |
| asubramanian-gatk | SNP | ti | map_siren | het | 80.0204 | 66.7709 | 99.8298 | 71.1364 | 41653 | 20729 | 41647 | 71 | 23 | 32.3944 | |
| qzeng-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.4871 | 98.2529 | 96.7332 | 77.3918 | 3093 | 55 | 3198 | 108 | 35 | 32.4074 | |
| qzeng-custom | INDEL | * | map_l125_m2_e1 | het | 82.4242 | 74.4318 | 92.3395 | 93.1454 | 1048 | 360 | 1338 | 111 | 36 | 32.4324 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.2051 | 91.0693 | 95.4433 | 86.0265 | 775 | 76 | 775 | 37 | 12 | 32.4324 | |
| ckim-isaac | SNP | tv | map_l100_m2_e0 | * | 75.7866 | 61.1033 | 99.7587 | 67.3111 | 15296 | 9737 | 15299 | 37 | 12 | 32.4324 | |