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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
251-300 / 86044 show all | |||||||||||||||
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 55.6919 | 47.1555 | 68.0020 | 66.7689 | 15086 | 16906 | 17977 | 8459 | 3479 | 41.1278 | |
| asubramanian-gatk | SNP | * | map_l100_m2_e0 | homalt | 55.9994 | 38.8911 | 99.9813 | 79.7534 | 10704 | 16819 | 10704 | 2 | 0 | 0.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | * | * | 93.7478 | 88.8514 | 99.2155 | 64.5183 | 133867 | 16797 | 133798 | 1058 | 675 | 63.7996 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 63.5899 | 54.1867 | 76.9418 | 62.7693 | 19828 | 16764 | 22724 | 6810 | 2991 | 43.9207 | |
| asubramanian-gatk | SNP | * | map_l100_m1_e0 | homalt | 55.1894 | 38.1143 | 99.9806 | 78.4662 | 10292 | 16711 | 10292 | 2 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | D6_15 | * | * | 49.9163 | 35.9727 | 81.5114 | 64.7243 | 9386 | 16706 | 8068 | 1830 | 539 | 29.4536 | |
| mlin-fermikit | SNP | * | HG002complexvar | het | 98.1632 | 96.4217 | 99.9688 | 17.2653 | 448843 | 16657 | 448744 | 140 | 23 | 16.4286 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 0.3711 | 0.0000 | 0.0000 | 62 | 16643 | 0 | 0 | 0 | ||
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 0.3711 | 0.0000 | 0.0000 | 62 | 16643 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 0.7543 | 0.0000 | 0.0000 | 126 | 16579 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 0.7543 | 0.0000 | 0.0000 | 126 | 16579 | 0 | 0 | 0 | ||
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 0.8620 | 0.0000 | 0.0000 | 144 | 16561 | 0 | 0 | 0 | ||
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 0.8620 | 0.0000 | 0.0000 | 144 | 16561 | 0 | 0 | 0 | ||
| asubramanian-gatk | SNP | ti | HG002complexvar | * | 98.3380 | 96.7457 | 99.9835 | 17.8536 | 491890 | 16546 | 491830 | 81 | 36 | 44.4444 | |
| gduggal-snapvard | SNP | ti | HG002complexvar | * | 97.8937 | 96.7473 | 99.0676 | 19.7850 | 491898 | 16538 | 483039 | 4546 | 1783 | 39.2213 | |
| jmaeng-gatk | SNP | * | * | * | 99.6144 | 99.4608 | 99.7686 | 23.7289 | 3038147 | 16472 | 3038001 | 7046 | 253 | 3.5907 | |
| gduggal-bwaplat | SNP | ti | map_siren | * | 90.8656 | 83.6301 | 99.4716 | 68.7099 | 83927 | 16428 | 83958 | 446 | 118 | 26.4574 | |
| anovak-vg | SNP | ti | HG002complexvar | * | 97.6154 | 96.7854 | 98.4597 | 17.8294 | 492093 | 16344 | 484655 | 7582 | 6075 | 80.1240 | |
| asubramanian-gatk | SNP | ti | * | homalt | 98.9721 | 97.9680 | 99.9969 | 16.0441 | 786720 | 16318 | 786711 | 24 | 22 | 91.6667 | |
| gduggal-bwaplat | INDEL | D1_5 | * | * | 93.7723 | 88.9284 | 99.1742 | 65.9734 | 130498 | 16247 | 130430 | 1086 | 611 | 56.2615 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 57.8545 | 55.6351 | 60.2584 | 48.5091 | 20358 | 16234 | 20333 | 13410 | 13207 | 98.4862 | |
| ckim-isaac | SNP | ti | map_l100_m2_e1 | * | 80.3859 | 67.2749 | 99.8441 | 64.2491 | 33291 | 16194 | 33295 | 52 | 10 | 19.2308 | |
| mlin-fermikit | SNP | * | map_l125_m2_e1 | het | 62.1228 | 45.4352 | 98.1839 | 65.4086 | 13467 | 16173 | 13462 | 249 | 8 | 3.2129 | |
| eyeh-varpipe | INDEL | * | * | hetalt | 52.2077 | 35.9353 | 95.4130 | 76.9125 | 9069 | 16168 | 11066 | 532 | 505 | 94.9248 | |
| eyeh-varpipe | INDEL | * | HG002compoundhet | hetalt | 52.4540 | 35.9293 | 97.1234 | 60.7545 | 9047 | 16133 | 10973 | 325 | 315 | 96.9231 | |
| gduggal-snapplat | INDEL | * | * | hetalt | 51.2002 | 36.0859 | 88.1005 | 81.7746 | 9107 | 16130 | 9151 | 1236 | 915 | 74.0291 | |
| gduggal-snapplat | INDEL | * | HG002compoundhet | hetalt | 52.0071 | 36.1279 | 92.7918 | 75.2011 | 9097 | 16083 | 9127 | 709 | 591 | 83.3568 | |
| mlin-fermikit | SNP | * | map_l125_m2_e0 | het | 61.8597 | 45.1531 | 98.1895 | 65.2404 | 13238 | 16080 | 13233 | 244 | 8 | 3.2787 | |
| ckim-isaac | SNP | ti | map_l100_m2_e0 | * | 80.3204 | 67.1841 | 99.8422 | 64.2807 | 32894 | 16067 | 32898 | 52 | 10 | 19.2308 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 0.0000 | 4.0108 | 0.0000 | 0.0000 | 670 | 16035 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 4.0108 | 0.0000 | 0.0000 | 670 | 16035 | 0 | 0 | 0 | ||
| ckim-vqsr | SNP | * | map_l150_m2_e1 | * | 66.6447 | 50.3105 | 98.6844 | 91.5888 | 16205 | 16005 | 16202 | 216 | 3 | 1.3889 | |
| asubramanian-gatk | SNP | ti | map_l100_m2_e1 | het | 65.2727 | 48.4981 | 99.7873 | 85.9875 | 15015 | 15945 | 15011 | 32 | 12 | 37.5000 | |
| ckim-isaac | SNP | ti | map_l100_m1_e0 | * | 80.0185 | 66.7647 | 99.8378 | 62.0110 | 32001 | 15930 | 32005 | 52 | 10 | 19.2308 | |
| ghariani-varprowl | INDEL | D1_5 | * | * | 89.8931 | 89.1478 | 90.6510 | 61.1738 | 130819 | 15925 | 130678 | 13477 | 11237 | 83.3791 | |
| gduggal-snapplat | INDEL | * | HG002complexvar | het | 73.0648 | 65.5393 | 82.5428 | 64.5149 | 30287 | 15925 | 32942 | 6967 | 459 | 6.5882 | |
| ckim-gatk | SNP | * | * | * | 99.6466 | 99.4788 | 99.8150 | 23.5123 | 3038698 | 15921 | 3038552 | 5632 | 250 | 4.4389 | |
| mlin-fermikit | SNP | * | map_l125_m1_e0 | het | 60.7541 | 43.9737 | 98.2445 | 60.8741 | 12485 | 15907 | 12480 | 223 | 8 | 3.5874 | |
| ckim-vqsr | SNP | * | map_l100_m2_e1 | homalt | 59.9673 | 42.8299 | 99.9664 | 78.5551 | 11905 | 15891 | 11905 | 4 | 3 | 75.0000 | |
| gduggal-snapvard | INDEL | * | * | hetalt | 0.0000 | 37.0438 | 0.0000 | 0.0000 | 9348 | 15887 | 0 | 0 | 0 | ||
| ghariani-varprowl | INDEL | * | * | homalt | 92.0100 | 87.3111 | 97.2434 | 45.5820 | 109289 | 15883 | 109183 | 3095 | 2195 | 70.9208 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 54.6126 | 50.3907 | 59.6067 | 38.4218 | 16121 | 15871 | 22551 | 15282 | 11968 | 78.3144 | |
| ckim-vqsr | SNP | * | map_l150_m2_e0 | * | 66.5265 | 50.1758 | 98.6845 | 91.5836 | 15982 | 15870 | 15979 | 213 | 3 | 1.4085 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 78.5574 | 75.3845 | 82.0092 | 73.4719 | 48571 | 15860 | 48524 | 10645 | 10484 | 98.4876 | |
| asubramanian-gatk | SNP | ti | map_l100_m2_e0 | het | 65.0317 | 48.2333 | 99.7838 | 86.0511 | 14770 | 15852 | 14766 | 32 | 12 | 37.5000 | |
| gduggal-snapvard | INDEL | * | HG002compoundhet | hetalt | 0.0000 | 37.0482 | 0.0000 | 0.0000 | 9328 | 15850 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | * | * | homalt | 92.2554 | 87.3566 | 97.7363 | 45.3284 | 109346 | 15826 | 109233 | 2530 | 2235 | 88.3399 | |
| anovak-vg | INDEL | D1_5 | * | * | 90.2130 | 89.2296 | 91.2183 | 56.6455 | 130940 | 15805 | 132532 | 12759 | 9010 | 70.6168 | |
| anovak-vg | SNP | * | HG002complexvar | het | 97.3572 | 96.6062 | 98.1199 | 19.3647 | 449702 | 15798 | 439022 | 8412 | 6308 | 74.9881 | |
| ckim-vqsr | SNP | * | map_l100_m2_e0 | homalt | 59.7529 | 42.6116 | 99.9659 | 78.6625 | 11728 | 15795 | 11728 | 4 | 3 | 75.0000 | |