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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
3551-3600 / 86044 show all | |||||||||||||||
| gduggal-snapvard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 0.0000 | 0.0000 | 24.8549 | 88.5733 | 0 | 0 | 257 | 777 | 66 | 8.4942 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 91.6710 | 91.9194 | 91.4238 | 85.3408 | 8395 | 738 | 8283 | 777 | 129 | 16.6023 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 91.6710 | 91.9194 | 91.4238 | 85.3408 | 8395 | 738 | 8283 | 777 | 129 | 16.6023 | |
| eyeh-varpipe | SNP | * | map_l150_m2_e0 | * | 98.5884 | 99.6578 | 97.5418 | 78.8388 | 31743 | 109 | 30831 | 777 | 30 | 3.8610 | |
| gduggal-bwaplat | INDEL | I1_5 | * | het | 93.5751 | 88.7894 | 98.9060 | 66.7915 | 70180 | 8861 | 70159 | 776 | 424 | 54.6392 | |
| ckim-gatk | SNP | * | map_l125_m2_e0 | * | 84.6410 | 74.5907 | 97.8215 | 85.1222 | 34851 | 11872 | 34845 | 776 | 59 | 7.6031 | |
| ckim-gatk | SNP | * | map_l125_m2_e1 | het | 88.6934 | 81.7679 | 96.9006 | 87.2177 | 24236 | 5404 | 24230 | 775 | 56 | 7.2258 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 58.1718 | 92.1182 | 42.5074 | 70.5677 | 561 | 48 | 573 | 775 | 722 | 93.1613 | |
| gduggal-bwafb | SNP | * | map_l100_m1_e0 | * | 99.0258 | 99.1202 | 98.9317 | 67.1588 | 71766 | 637 | 71768 | 775 | 161 | 20.7742 | |
| gduggal-bwavard | SNP | ti | map_l250_m2_e0 | het | 88.2119 | 97.7566 | 80.3653 | 93.2143 | 3181 | 73 | 3168 | 774 | 21 | 2.7132 | |
| hfeng-pmm2 | SNP | ti | * | * | 99.9484 | 99.9340 | 99.9629 | 17.4396 | 2084135 | 1376 | 2084077 | 774 | 72 | 9.3023 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.5692 | 95.2826 | 97.8910 | 53.1171 | 36114 | 1788 | 35925 | 774 | 749 | 96.7700 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 69.9723 | 87.2727 | 58.3961 | 90.3865 | 1104 | 161 | 1085 | 773 | 47 | 6.0802 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 64.6167 | 62.4637 | 66.9234 | 55.7051 | 1506 | 905 | 1564 | 773 | 382 | 49.4179 | |
| ghariani-varprowl | SNP | * | map_l125_m0_e0 | het | 96.3272 | 98.5786 | 94.1762 | 82.3918 | 12484 | 180 | 12484 | 772 | 162 | 20.9845 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 43.1800 | 56.8831 | 34.7973 | 40.5025 | 219 | 166 | 412 | 772 | 591 | 76.5544 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 81.1375 | 80.9173 | 81.3588 | 37.8886 | 3299 | 778 | 3365 | 771 | 561 | 72.7626 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.3939 | 98.8110 | 96.0169 | 66.9230 | 17950 | 216 | 18586 | 771 | 551 | 71.4656 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.3939 | 98.8110 | 96.0169 | 66.9230 | 17950 | 216 | 18586 | 771 | 551 | 71.4656 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.6838 | 97.4223 | 97.9467 | 56.1751 | 36925 | 977 | 36731 | 770 | 739 | 95.9740 | |
| ghariani-varprowl | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 91.7513 | 98.3837 | 85.9566 | 77.5029 | 4687 | 77 | 4713 | 770 | 56 | 7.2727 | |
| ciseli-custom | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 89.3094 | 98.5239 | 81.6710 | 71.7637 | 3404 | 51 | 3431 | 770 | 248 | 32.2078 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 85.6106 | 97.3432 | 76.4021 | 67.2751 | 1319 | 36 | 2493 | 770 | 121 | 15.7143 | |
| ckim-isaac | INDEL | I6_15 | * | het | 88.7567 | 85.9065 | 91.8024 | 48.2080 | 8619 | 1414 | 8623 | 770 | 554 | 71.9481 | |
| gduggal-snapfb | SNP | ti | HG002complexvar | homalt | 99.6542 | 99.7054 | 99.6030 | 19.3776 | 192894 | 570 | 192940 | 769 | 240 | 31.2094 | |
| eyeh-varpipe | SNP | * | map_l150_m2_e1 | het | 97.8792 | 99.5826 | 96.2332 | 80.4169 | 20278 | 85 | 19646 | 769 | 22 | 2.8609 | |
| ckim-gatk | SNP | * | map_l125_m2_e0 | het | 88.5829 | 81.5915 | 96.8846 | 87.2138 | 23921 | 5397 | 23915 | 769 | 55 | 7.1522 | |
| gduggal-snapvard | SNP | * | * | homalt | 99.4378 | 98.9468 | 99.9337 | 17.0443 | 1167733 | 12429 | 1158113 | 768 | 475 | 61.8490 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 88.0249 | 90.0274 | 86.1096 | 53.5183 | 5263 | 583 | 4761 | 768 | 648 | 84.3750 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 88.0249 | 90.0274 | 86.1096 | 53.5183 | 5263 | 583 | 4761 | 768 | 648 | 84.3750 | |
| gduggal-bwavard | SNP | ti | map_l250_m1_e0 | * | 90.9201 | 97.4012 | 85.2478 | 91.8224 | 4460 | 119 | 4438 | 768 | 26 | 3.3854 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.3231 | 97.9202 | 94.7773 | 65.7410 | 14313 | 304 | 13937 | 768 | 672 | 87.5000 | |
| cchapple-custom | INDEL | * | HG002compoundhet | homalt | 57.1228 | 98.5423 | 40.2182 | 82.1359 | 676 | 10 | 516 | 767 | 761 | 99.2177 | |
| gduggal-snapvard | INDEL | C1_5 | HG002compoundhet | * | 0.0000 | 0.0000 | 30.1095 | 80.7008 | 0 | 1 | 330 | 766 | 111 | 14.4909 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.4678 | 96.9896 | 97.9508 | 56.0360 | 36761 | 1141 | 36567 | 765 | 735 | 96.0784 | |
| ckim-dragen | SNP | * | map_l150_m2_e1 | het | 97.5066 | 98.7084 | 96.3337 | 81.8435 | 20100 | 263 | 20101 | 765 | 71 | 9.2811 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 73.9804 | 73.1132 | 74.8684 | 46.1375 | 2015 | 741 | 2276 | 764 | 413 | 54.0576 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 86.2959 | 82.2171 | 90.8006 | 44.5699 | 3204 | 693 | 7531 | 763 | 673 | 88.2045 | |
| gduggal-snapfb | SNP | * | HG002compoundhet | homalt | 96.1466 | 99.1282 | 93.3392 | 44.8696 | 10688 | 94 | 10692 | 763 | 275 | 36.0419 | |
| ckim-dragen | SNP | * | map_l100_m0_e0 | het | 97.6312 | 98.8022 | 96.4876 | 75.1408 | 20951 | 254 | 20960 | 763 | 67 | 8.7811 | |
| eyeh-varpipe | SNP | * | map_l150_m2_e0 | het | 97.8706 | 99.5778 | 96.2209 | 80.3517 | 20048 | 85 | 19427 | 763 | 22 | 2.8834 | |
| gduggal-bwafb | SNP | * | map_l100_m2_e1 | het | 98.7046 | 99.0277 | 98.3837 | 71.3332 | 46442 | 456 | 46444 | 763 | 144 | 18.8729 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 84.3637 | 87.9716 | 81.0401 | 48.2088 | 3218 | 440 | 3257 | 762 | 318 | 41.7323 | |
| ciseli-custom | INDEL | * | map_l100_m1_e0 | * | 70.4613 | 65.9230 | 75.6705 | 87.5050 | 2364 | 1222 | 2370 | 762 | 504 | 66.1417 | |
| ghariani-varprowl | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 87.4326 | 96.2516 | 80.0940 | 76.2162 | 3030 | 118 | 3066 | 762 | 11 | 1.4436 | |
| gduggal-snapplat | INDEL | D1_5 | * | hetalt | 56.5026 | 42.2548 | 85.2469 | 84.6995 | 4329 | 5916 | 4403 | 762 | 572 | 75.0656 | |
| ghariani-varprowl | INDEL | * | map_siren | het | 91.4200 | 98.4028 | 85.3626 | 87.1990 | 4436 | 72 | 4438 | 761 | 424 | 55.7162 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.8254 | 98.0798 | 97.5723 | 79.1147 | 30545 | 598 | 30586 | 761 | 104 | 13.6662 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.8254 | 98.0798 | 97.5723 | 79.1147 | 30545 | 598 | 30586 | 761 | 104 | 13.6662 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 89.5893 | 84.9685 | 94.7416 | 48.7318 | 7145 | 1264 | 13711 | 761 | 716 | 94.0867 | |