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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
26551-26600 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | D6_15 | map_l100_m1_e0 | hetalt | 95.3846 | 91.1765 | 100.0000 | 73.5043 | 62 | 6 | 62 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | D6_15 | map_l100_m2_e0 | hetalt | 95.3846 | 91.1765 | 100.0000 | 75.0000 | 62 | 6 | 62 | 0 | 0 | ||
| gduggal-bwavard | SNP | ti | map_l150_m2_e0 | * | 95.3841 | 97.5624 | 93.3010 | 83.0334 | 20012 | 500 | 19833 | 1424 | 93 | 6.5309 | |
| ltrigg-rtg1 | INDEL | * | map_l100_m0_e0 | het | 95.3831 | 92.0666 | 98.9474 | 74.9605 | 940 | 81 | 940 | 10 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.3820 | 92.0779 | 98.9320 | 57.7089 | 2034 | 175 | 2038 | 22 | 19 | 86.3636 | |
| ckim-gatk | INDEL | * | map_l125_m2_e0 | het | 95.3815 | 98.4903 | 92.4630 | 92.4771 | 1370 | 21 | 1374 | 112 | 7 | 6.2500 | |
| astatham-gatk | INDEL | * | map_l250_m2_e0 | * | 95.3800 | 96.6767 | 94.1176 | 96.2801 | 320 | 11 | 320 | 20 | 4 | 20.0000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 95.3789 | 96.2567 | 94.5170 | 61.8146 | 360 | 14 | 362 | 21 | 21 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.3785 | 91.3011 | 99.8371 | 36.7431 | 2414 | 230 | 2451 | 4 | 3 | 75.0000 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 95.3784 | 95.4685 | 95.2885 | 77.7755 | 43631 | 2071 | 43726 | 2162 | 267 | 12.3497 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 95.3784 | 95.4685 | 95.2885 | 77.7755 | 43631 | 2071 | 43726 | 2162 | 267 | 12.3497 | |
| cchapple-custom | SNP | * | map_l125_m0_e0 | het | 95.3778 | 96.3598 | 94.4157 | 80.7050 | 12203 | 461 | 12207 | 722 | 175 | 24.2382 | |
| egarrison-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.3777 | 93.7799 | 97.0308 | 84.5325 | 2548 | 169 | 2549 | 78 | 41 | 52.5641 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.3773 | 91.9938 | 99.0193 | 54.3250 | 2953 | 257 | 2928 | 29 | 29 | 100.0000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | map_siren | * | 95.3756 | 95.3488 | 95.4023 | 91.3087 | 82 | 4 | 83 | 4 | 1 | 25.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.3752 | 93.1818 | 97.6744 | 77.3684 | 41 | 3 | 42 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.3747 | 93.0131 | 97.8593 | 82.1067 | 639 | 48 | 640 | 14 | 12 | 85.7143 | |
| ckim-vqsr | INDEL | * | map_l125_m0_e0 | het | 95.3743 | 96.5928 | 94.1860 | 94.0596 | 567 | 20 | 567 | 35 | 1 | 2.8571 | |
| anovak-vg | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 95.3736 | 96.4849 | 94.2876 | 62.2229 | 34174 | 1245 | 35108 | 2127 | 869 | 40.8557 | |
| gduggal-snapfb | SNP | tv | map_l125_m0_e0 | * | 95.3719 | 95.7171 | 95.0292 | 79.3444 | 6347 | 284 | 6347 | 332 | 129 | 38.8554 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 95.3716 | 91.7119 | 99.3355 | 36.2626 | 1184 | 107 | 1196 | 8 | 8 | 100.0000 | |
| raldana-dualsentieon | INDEL | * | HG002compoundhet | hetalt | 95.3715 | 91.1597 | 99.9913 | 50.4712 | 22954 | 2226 | 23068 | 2 | 2 | 100.0000 | |
| jpowers-varprowl | INDEL | * | map_l150_m2_e0 | homalt | 95.3714 | 92.0998 | 98.8839 | 87.1375 | 443 | 38 | 443 | 5 | 3 | 60.0000 | |
| gduggal-snapfb | INDEL | * | func_cds | homalt | 95.3704 | 91.1504 | 100.0000 | 31.5615 | 206 | 20 | 206 | 0 | 0 | ||
| ciseli-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 95.3693 | 99.2326 | 91.7955 | 63.9797 | 20044 | 155 | 20005 | 1788 | 579 | 32.3826 | |
| astatham-gatk | INDEL | D1_5 | map_l125_m0_e0 | het | 95.3690 | 95.3623 | 95.3757 | 89.7329 | 329 | 16 | 330 | 16 | 1 | 6.2500 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.3688 | 98.2332 | 92.6667 | 69.5122 | 278 | 5 | 278 | 22 | 22 | 100.0000 | |
| raldana-dualsentieon | INDEL | * | * | hetalt | 95.3681 | 91.1677 | 99.9742 | 56.5406 | 23008 | 2229 | 23230 | 6 | 6 | 100.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 95.3676 | 96.3218 | 94.4321 | 66.5425 | 419 | 16 | 424 | 25 | 17 | 68.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.3668 | 91.8216 | 99.1968 | 76.6417 | 247 | 22 | 247 | 2 | 1 | 50.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.3668 | 91.8216 | 99.1968 | 76.6417 | 247 | 22 | 247 | 2 | 1 | 50.0000 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 95.3664 | 97.8824 | 92.9766 | 48.8889 | 832 | 18 | 834 | 63 | 21 | 33.3333 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 95.3656 | 94.1057 | 96.6597 | 54.6402 | 463 | 29 | 463 | 16 | 13 | 81.2500 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 95.3650 | 91.5952 | 99.4585 | 65.4829 | 534 | 49 | 551 | 3 | 2 | 66.6667 | |
| jlack-gatk | SNP | ti | map_l125_m2_e1 | het | 95.3643 | 99.0674 | 91.9280 | 83.3869 | 18909 | 178 | 18905 | 1660 | 140 | 8.4337 | |
| ltrigg-rtg1 | INDEL | * | map_l150_m2_e0 | het | 95.3640 | 91.9426 | 99.0499 | 82.6284 | 833 | 73 | 834 | 8 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | D1_5 | map_l150_m2_e0 | * | 95.3628 | 98.1651 | 92.7160 | 92.5428 | 749 | 14 | 751 | 59 | 5 | 8.4746 | |
| gduggal-snapvard | SNP | ti | map_siren | het | 95.3627 | 96.2088 | 94.5314 | 68.3335 | 60017 | 2365 | 59499 | 3442 | 355 | 10.3138 | |
| ghariani-varprowl | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 95.3623 | 98.6138 | 92.3184 | 52.1702 | 4624 | 65 | 4639 | 386 | 5 | 1.2953 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.3619 | 93.9050 | 96.8649 | 73.4043 | 909 | 59 | 896 | 29 | 7 | 24.1379 | |
| jlack-gatk | INDEL | * | map_siren | hetalt | 95.3604 | 91.4980 | 99.5633 | 86.9812 | 226 | 21 | 228 | 1 | 0 | 0.0000 | |
| jpowers-varprowl | INDEL | D1_5 | map_siren | het | 95.3594 | 97.0136 | 93.7606 | 83.6842 | 2209 | 68 | 2209 | 147 | 108 | 73.4694 | |
| astatham-gatk | INDEL | I1_5 | map_l150_m1_e0 | het | 95.3587 | 92.6421 | 98.2394 | 90.9091 | 277 | 22 | 279 | 5 | 0 | 0.0000 | |
| astatham-gatk | INDEL | * | map_l100_m1_e0 | hetalt | 95.3586 | 91.1290 | 100.0000 | 86.6040 | 113 | 11 | 114 | 0 | 0 | ||
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.3583 | 99.6679 | 91.4059 | 82.1531 | 3902 | 13 | 3914 | 368 | 228 | 61.9565 | |
| eyeh-varpipe | INDEL | * | map_l250_m0_e0 | het | 95.3582 | 96.2264 | 94.5055 | 96.7254 | 51 | 2 | 86 | 5 | 2 | 40.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | HG002complexvar | hetalt | 95.3564 | 92.8046 | 98.0525 | 53.9032 | 1135 | 88 | 1158 | 23 | 21 | 91.3043 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 95.3553 | 92.3423 | 98.5714 | 56.3410 | 205 | 17 | 207 | 3 | 1 | 33.3333 | |
| gduggal-bwafb | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.3543 | 98.5726 | 92.3394 | 77.6916 | 4696 | 68 | 4701 | 390 | 34 | 8.7180 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 95.3539 | 94.1988 | 96.5376 | 67.5442 | 4709 | 290 | 4963 | 178 | 155 | 87.0787 | |