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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
52301-52350 / 86044 show all | |||||||||||||||
| gduggal-snapplat | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 11.5108 | 7.7670 | 22.2222 | 93.9481 | 16 | 190 | 14 | 49 | 4 | 8.1633 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 72.9338 | 86.2903 | 63.1579 | 90.1262 | 107 | 17 | 84 | 49 | 4 | 8.1633 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 60.1899 | 90.0452 | 45.2026 | 89.8966 | 199 | 22 | 212 | 257 | 21 | 8.1712 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 87.6106 | 86.8839 | 88.3495 | 88.3802 | 17011 | 2568 | 17070 | 2251 | 184 | 8.1741 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 87.6106 | 86.8839 | 88.3495 | 88.3802 | 17011 | 2568 | 17070 | 2251 | 184 | 8.1741 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 85.7525 | 97.3468 | 76.6261 | 86.4563 | 4036 | 110 | 4088 | 1247 | 102 | 8.1796 | |
| hfeng-pmm2 | SNP | tv | * | * | 99.9268 | 99.9066 | 99.9471 | 21.6564 | 968784 | 906 | 968705 | 513 | 42 | 8.1871 | |
| gduggal-snapvard | SNP | ti | map_l150_m2_e0 | * | 92.6480 | 96.1047 | 89.4313 | 82.4164 | 19713 | 799 | 19530 | 2308 | 189 | 8.1889 | |
| ckim-gatk | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.3819 | 99.8008 | 98.9665 | 67.1777 | 17533 | 35 | 17523 | 183 | 15 | 8.1967 | |
| hfeng-pmm1 | SNP | ti | segdup | * | 99.7442 | 99.8004 | 99.6881 | 88.7407 | 19498 | 39 | 19496 | 61 | 5 | 8.1967 | |
| gduggal-snapplat | INDEL | * | segdup | * | 77.9673 | 71.4789 | 85.7514 | 96.5099 | 1827 | 729 | 1980 | 329 | 27 | 8.2067 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.8701 | 99.3283 | 98.4162 | 75.2675 | 45395 | 307 | 45425 | 731 | 60 | 8.2079 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.8701 | 99.3283 | 98.4162 | 75.2675 | 45395 | 307 | 45425 | 731 | 60 | 8.2079 | |
| jlack-gatk | SNP | ti | map_l250_m2_e0 | het | 92.2213 | 98.3712 | 86.7950 | 94.0302 | 3201 | 53 | 3201 | 487 | 40 | 8.2136 | |
| ckim-gatk | INDEL | * | map_l125_m0_e0 | * | 95.2938 | 98.5261 | 92.2669 | 92.7054 | 869 | 13 | 871 | 73 | 6 | 8.2192 | |
| ltrigg-rtg2 | SNP | ti | map_l100_m2_e1 | het | 98.9153 | 98.0846 | 99.7602 | 53.1134 | 30367 | 593 | 30370 | 73 | 6 | 8.2192 | |
| hfeng-pmm2 | SNP | ti | map_l125_m1_e0 | het | 99.1603 | 99.2500 | 99.0708 | 74.2780 | 18129 | 137 | 18125 | 170 | 14 | 8.2353 | |
| jpowers-varprowl | SNP | ti | HG002compoundhet | het | 95.4233 | 93.7822 | 97.1228 | 46.8499 | 8914 | 591 | 9013 | 267 | 22 | 8.2397 | |
| gduggal-snapvard | SNP | ti | map_l150_m2_e1 | * | 92.6900 | 96.1203 | 89.4961 | 82.4891 | 19919 | 804 | 19733 | 2316 | 191 | 8.2470 | |
| dgrover-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.7696 | 99.8855 | 99.6539 | 55.1919 | 27927 | 32 | 27926 | 97 | 8 | 8.2474 | |
| ckim-gatk | SNP | * | map_l150_m1_e0 | * | 80.0337 | 67.8232 | 97.6062 | 88.0251 | 20760 | 9849 | 20754 | 509 | 42 | 8.2515 | |
| ckim-dragen | SNP | ti | map_l150_m0_e0 | het | 96.9562 | 98.1165 | 95.8230 | 83.8541 | 5001 | 96 | 5001 | 218 | 18 | 8.2569 | |
| jli-custom | SNP | * | * | * | 99.9382 | 99.9603 | 99.9160 | 18.2994 | 3053407 | 1212 | 3053302 | 2566 | 212 | 8.2619 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 71.8992 | 96.8668 | 57.1649 | 88.9701 | 371 | 12 | 371 | 278 | 23 | 8.2734 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.9363 | 99.2849 | 98.5900 | 75.9853 | 19439 | 140 | 19439 | 278 | 23 | 8.2734 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.9363 | 99.2849 | 98.5900 | 75.9853 | 19439 | 140 | 19439 | 278 | 23 | 8.2734 | |
| jlack-gatk | SNP | * | map_l150_m0_e0 | * | 93.9698 | 98.0635 | 90.2042 | 86.8496 | 11799 | 233 | 11796 | 1281 | 106 | 8.2748 | |
| ltrigg-rtg1 | SNP | ti | * | * | 99.8970 | 99.8948 | 99.8992 | 16.3223 | 2083318 | 2194 | 2083241 | 2102 | 174 | 8.2778 | |
| hfeng-pmm2 | SNP | * | map_l100_m1_e0 | het | 99.3136 | 99.3717 | 99.2555 | 68.4046 | 45074 | 285 | 45063 | 338 | 28 | 8.2840 | |
| gduggal-bwafb | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.6683 | 98.8300 | 92.7026 | 77.7557 | 3210 | 38 | 3214 | 253 | 21 | 8.3004 | |
| jlack-gatk | INDEL | * | map_l100_m2_e1 | het | 93.7377 | 98.1647 | 89.6927 | 89.8540 | 2300 | 43 | 2306 | 265 | 22 | 8.3019 | |
| hfeng-pmm2 | SNP | * | map_l125_m2_e1 | het | 99.1256 | 99.2645 | 98.9871 | 75.5812 | 29422 | 218 | 29416 | 301 | 25 | 8.3057 | |
| gduggal-bwaplat | SNP | tv | HG002compoundhet | het | 81.9141 | 84.1429 | 79.8002 | 62.7770 | 3932 | 741 | 3994 | 1011 | 84 | 8.3086 | |
| ckim-dragen | SNP | * | map_l100_m2_e0 | het | 98.0933 | 99.2263 | 96.9859 | 73.8971 | 46040 | 359 | 46046 | 1431 | 119 | 8.3159 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 71.1668 | 93.6709 | 57.3812 | 87.0357 | 1332 | 90 | 1376 | 1022 | 85 | 8.3170 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 52.6981 | 52.4613 | 52.9371 | 95.3580 | 746 | 676 | 757 | 673 | 56 | 8.3210 | |
| jmaeng-gatk | SNP | ti | map_siren | het | 96.0962 | 93.8396 | 98.4641 | 69.3151 | 58539 | 3843 | 58530 | 913 | 76 | 8.3242 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.4749 | 99.2317 | 99.7192 | 49.7413 | 4262 | 33 | 4262 | 12 | 1 | 8.3333 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2155 | 98.8831 | 99.5502 | 52.7537 | 2656 | 30 | 2656 | 12 | 1 | 8.3333 | |
| jmaeng-gatk | INDEL | * | map_siren | het | 97.3536 | 98.6247 | 96.1148 | 86.8437 | 4446 | 62 | 4453 | 180 | 15 | 8.3333 | |
| jmaeng-gatk | INDEL | D1_5 | map_l100_m0_e0 | * | 95.5921 | 97.9143 | 93.3775 | 89.4196 | 845 | 18 | 846 | 60 | 5 | 8.3333 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.4853 | 98.2646 | 98.7069 | 72.8496 | 906 | 16 | 916 | 12 | 1 | 8.3333 | |
| ltrigg-rtg1 | SNP | * | map_l100_m2_e1 | het | 99.0006 | 98.3219 | 99.6887 | 57.1362 | 46111 | 787 | 46109 | 144 | 12 | 8.3333 | |
| gduggal-snapplat | INDEL | I1_5 | map_l100_m0_e0 | homalt | 86.6295 | 80.7692 | 93.4066 | 89.1538 | 168 | 40 | 170 | 12 | 1 | 8.3333 | |
| gduggal-snapplat | INDEL | I6_15 | segdup | het | 37.0075 | 26.5060 | 61.2903 | 95.4210 | 22 | 61 | 19 | 12 | 1 | 8.3333 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 86.1010 | 77.3614 | 97.0668 | 59.1479 | 3571 | 1045 | 3574 | 108 | 9 | 8.3333 | |
| gduggal-snapplat | SNP | ti | func_cds | het | 99.3942 | 99.3532 | 99.4351 | 33.3621 | 8449 | 55 | 8449 | 48 | 4 | 8.3333 | |
| gduggal-snapplat | SNP | tv | segdup | het | 98.3319 | 98.0329 | 98.6327 | 95.7233 | 5183 | 104 | 5194 | 72 | 6 | 8.3333 | |
| gduggal-snapfb | INDEL | D1_5 | map_l250_m2_e0 | * | 95.1872 | 96.7391 | 93.6842 | 95.1568 | 178 | 6 | 178 | 12 | 1 | 8.3333 | |
| gduggal-snapfb | INDEL | D1_5 | map_l250_m2_e0 | het | 93.6000 | 96.6942 | 90.6977 | 93.6233 | 117 | 4 | 117 | 12 | 1 | 8.3333 | |