PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
64251-64300 / 86044 show all | |||||||||||||||
| jmaeng-gatk | INDEL | D1_5 | map_l150_m2_e1 | * | 95.3248 | 98.0720 | 92.7273 | 92.5454 | 763 | 15 | 765 | 60 | 6 | 10.0000 | |
| jpowers-varprowl | INDEL | I1_5 | map_l125_m1_e0 | * | 94.3862 | 92.1687 | 96.7130 | 85.8775 | 765 | 65 | 765 | 26 | 19 | 73.0769 | |
| ckim-gatk | INDEL | D1_5 | map_l125_m2_e1 | het | 94.9121 | 99.0909 | 91.0714 | 91.6749 | 763 | 7 | 765 | 75 | 4 | 5.3333 | |
| gduggal-snapfb | INDEL | I1_5 | map_l100_m2_e0 | het | 95.1985 | 95.9647 | 94.4444 | 84.6066 | 761 | 32 | 765 | 45 | 6 | 13.3333 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l125_m2_e1 | het | 97.9502 | 99.0909 | 96.8354 | 87.4264 | 763 | 7 | 765 | 25 | 2 | 8.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l125_m2_e1 | het | 98.7722 | 99.0909 | 98.4556 | 84.6291 | 763 | 7 | 765 | 12 | 2 | 16.6667 | |
| jlack-gatk | INDEL | * | map_l125_m2_e1 | homalt | 98.7734 | 98.8372 | 98.7097 | 86.3987 | 765 | 9 | 765 | 10 | 5 | 50.0000 | |
| jlack-gatk | INDEL | D1_5 | map_l125_m2_e1 | het | 92.0567 | 99.0909 | 85.9551 | 90.9534 | 763 | 7 | 765 | 125 | 5 | 4.0000 | |
| asubramanian-gatk | INDEL | I1_5 | HG002compoundhet | het | 93.5851 | 96.0000 | 91.2888 | 86.8239 | 816 | 34 | 765 | 73 | 70 | 95.8904 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.1478 | 98.2188 | 98.0769 | 60.6061 | 772 | 14 | 765 | 15 | 10 | 66.6667 | |
| asubramanian-gatk | INDEL | * | map_l150_m2_e1 | het | 87.2472 | 82.4675 | 92.6150 | 93.8423 | 762 | 162 | 765 | 61 | 6 | 9.8361 | |
| egarrison-hhga | INDEL | I1_5 | map_l100_m1_e0 | het | 98.5825 | 98.4556 | 98.7097 | 83.9478 | 765 | 12 | 765 | 10 | 1 | 10.0000 | |
| dgrover-gatk | INDEL | * | map_l125_m2_e1 | homalt | 98.9025 | 98.9664 | 98.8387 | 87.1943 | 766 | 8 | 766 | 9 | 4 | 44.4444 | |
| gduggal-snapfb | INDEL | I6_15 | HG002complexvar | homalt | 74.1849 | 64.7446 | 86.8481 | 42.3529 | 786 | 428 | 766 | 116 | 108 | 93.1034 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l150_m2_e1 | * | 98.2028 | 98.2005 | 98.2051 | 88.8460 | 764 | 14 | 766 | 14 | 7 | 50.0000 | |
| rpoplin-dv42 | INDEL | * | map_l125_m2_e1 | homalt | 99.0304 | 98.9664 | 99.0944 | 86.2407 | 766 | 8 | 766 | 7 | 6 | 85.7143 | |
| jmaeng-gatk | INDEL | I1_5 | map_l100_m1_e0 | het | 96.8346 | 98.0695 | 95.6305 | 89.6028 | 762 | 15 | 766 | 35 | 1 | 2.8571 | |
| jli-custom | INDEL | D1_5 | map_l150_m2_e1 | * | 98.3301 | 98.3290 | 98.3312 | 88.4043 | 765 | 13 | 766 | 13 | 5 | 38.4615 | |
| jli-custom | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.4403 | 91.3876 | 97.7041 | 63.8876 | 764 | 72 | 766 | 18 | 15 | 83.3333 | |
| ndellapenna-hhga | INDEL | * | map_l125_m2_e1 | homalt | 98.9664 | 98.9664 | 98.9664 | 85.9247 | 766 | 8 | 766 | 8 | 6 | 75.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.4581 | 99.2238 | 97.7041 | 73.3786 | 767 | 6 | 766 | 18 | 3 | 16.6667 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.6848 | 91.6268 | 97.9540 | 67.5249 | 766 | 70 | 766 | 16 | 14 | 87.5000 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.1124 | 95.2081 | 99.0944 | 24.4379 | 755 | 38 | 766 | 7 | 6 | 85.7143 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l125_m2_e1 | het | 98.3302 | 99.2208 | 97.4555 | 87.7969 | 764 | 6 | 766 | 20 | 3 | 15.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 38.0404 | 35.5733 | 40.8751 | 72.9582 | 757 | 1371 | 766 | 1108 | 1004 | 90.6137 | |
| jlack-gatk | INDEL | I1_5 | map_l100_m1_e0 | het | 95.4470 | 98.0695 | 92.9612 | 88.8271 | 762 | 15 | 766 | 58 | 3 | 5.1724 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l100_m1_e0 | het | 98.5182 | 98.1982 | 98.8402 | 84.7364 | 763 | 14 | 767 | 9 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l100_m1_e0 | het | 98.7719 | 98.1982 | 99.3523 | 82.2488 | 763 | 14 | 767 | 5 | 0 | 0.0000 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.2401 | 95.3342 | 99.2238 | 23.4653 | 756 | 37 | 767 | 6 | 5 | 83.3333 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.7214 | 91.1483 | 98.5861 | 64.1475 | 762 | 74 | 767 | 11 | 6 | 54.5455 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.2401 | 95.3342 | 99.2238 | 23.4653 | 756 | 37 | 767 | 6 | 6 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | map_l150_m2_e1 | * | 98.2053 | 98.3290 | 98.0818 | 90.2929 | 765 | 13 | 767 | 15 | 4 | 26.6667 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.8084 | 91.7464 | 98.0818 | 67.8189 | 767 | 69 | 767 | 15 | 13 | 86.6667 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.2401 | 95.3342 | 99.2238 | 23.4653 | 756 | 37 | 767 | 6 | 6 | 100.0000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 89.9308 | 89.1078 | 90.7692 | 60.4401 | 769 | 94 | 767 | 78 | 76 | 97.4359 | |
| anovak-vg | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 39.1152 | 33.2790 | 47.4335 | 60.0049 | 613 | 1229 | 767 | 850 | 647 | 76.1176 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m1_e0 | het | 98.5836 | 98.3269 | 98.8417 | 84.3252 | 764 | 13 | 768 | 9 | 0 | 0.0000 | |
| ckim-gatk | INDEL | * | map_l125_m2_e1 | homalt | 99.1607 | 99.2248 | 99.0968 | 87.3717 | 768 | 6 | 768 | 7 | 4 | 57.1429 | |
| ckim-gatk | INDEL | D1_5 | map_l150_m2_e1 | * | 95.0477 | 98.4576 | 91.8660 | 92.3764 | 766 | 12 | 768 | 68 | 6 | 8.8235 | |
| ckim-gatk | INDEL | I1_5 | map_l100_m1_e0 | het | 97.0881 | 98.3269 | 95.8801 | 89.2469 | 764 | 13 | 768 | 33 | 1 | 3.0303 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.3061 | 95.4603 | 99.2248 | 24.1920 | 757 | 36 | 768 | 6 | 6 | 100.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6112 | 99.4825 | 99.7403 | 78.0188 | 769 | 4 | 768 | 2 | 0 | 0.0000 | |
| jli-custom | INDEL | I1_5 | map_l100_m1_e0 | het | 99.1589 | 98.5843 | 99.7403 | 82.0596 | 766 | 11 | 768 | 2 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 89.8860 | 81.7168 | 99.8700 | 38.3320 | 733 | 164 | 768 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | D6_15 | HG002compoundhet | * | 9.9769 | 8.5262 | 12.0225 | 38.0227 | 770 | 8261 | 768 | 5620 | 5568 | 99.0747 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 85.7428 | 78.4150 | 94.5813 | 55.1133 | 752 | 207 | 768 | 44 | 43 | 97.7273 | |
| gduggal-bwavard | INDEL | I1_5 | map_l100_m2_e0 | het | 94.4176 | 97.9823 | 91.1032 | 89.6399 | 777 | 16 | 768 | 75 | 36 | 48.0000 | |
| gduggal-bwaplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 67.7973 | 53.7975 | 91.6468 | 94.9895 | 765 | 657 | 768 | 70 | 16 | 22.8571 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 91.5880 | 92.9697 | 90.2468 | 68.7592 | 767 | 58 | 768 | 83 | 69 | 83.1325 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 91.5880 | 92.9697 | 90.2468 | 68.7592 | 767 | 58 | 768 | 83 | 69 | 83.1325 | |