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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
85851-85900 / 86044 show all | |||||||||||||||
| ckim-isaac | SNP | * | map_l125_m2_e0 | * | 73.7324 | 58.4787 | 99.7518 | 72.8403 | 27323 | 19400 | 27325 | 68 | 16 | 23.5294 | |
| asubramanian-gatk | SNP | * | map_l125_m2_e1 | het | 51.2109 | 34.4568 | 99.6778 | 92.5521 | 10213 | 19427 | 10210 | 33 | 8 | 24.2424 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 76.9680 | 69.6854 | 85.9503 | 79.9286 | 44899 | 19532 | 52067 | 8511 | 3951 | 46.4223 | |
| ciseli-custom | SNP | * | HG002complexvar | het | 95.7970 | 95.7987 | 95.7952 | 20.3525 | 445943 | 19557 | 439539 | 19293 | 621 | 3.2188 | |
| ckim-isaac | SNP | * | map_l125_m2_e1 | * | 73.7959 | 58.5590 | 99.7510 | 72.8548 | 27641 | 19561 | 27643 | 69 | 17 | 24.6377 | |
| qzeng-custom | SNP | * | map_siren | * | 92.3867 | 86.6004 | 99.0016 | 63.6130 | 126634 | 19594 | 125047 | 1261 | 903 | 71.6098 | |
| ciseli-custom | SNP | ti | * | het | 97.9524 | 98.4710 | 97.4391 | 21.0644 | 1262297 | 19600 | 1259858 | 33111 | 542 | 1.6369 | |
| gduggal-snapplat | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 65.4034 | 58.8863 | 73.5426 | 80.9801 | 28425 | 19846 | 32333 | 11632 | 1955 | 16.8071 | |
| asubramanian-gatk | SNP | tv | map_siren | * | 72.2865 | 56.6449 | 99.8618 | 75.5276 | 26017 | 19913 | 26011 | 36 | 12 | 33.3333 | |
| jpowers-varprowl | INDEL | I1_5 | * | * | 89.2914 | 86.7586 | 91.9765 | 55.5394 | 130714 | 19950 | 130591 | 11392 | 11025 | 96.7784 | |
| gduggal-bwavard | SNP | ti | * | * | 99.3434 | 99.0343 | 99.6545 | 21.4644 | 2065379 | 20139 | 2057255 | 7133 | 2188 | 30.6743 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 51.7221 | 46.8234 | 57.7656 | 39.6200 | 17747 | 20155 | 24726 | 18078 | 14175 | 78.4102 | |
| mlin-fermikit | SNP | * | map_l100_m1_e0 | het | 71.0748 | 55.5458 | 98.6565 | 54.0604 | 25195 | 20164 | 25187 | 343 | 11 | 3.2070 | |
| mlin-fermikit | SNP | * | map_l100_m2_e0 | het | 71.6803 | 56.3051 | 98.6068 | 57.9033 | 26125 | 20274 | 26117 | 369 | 11 | 2.9810 | |
| asubramanian-gatk | SNP | ti | map_l125_m1_e0 | * | 47.1088 | 30.8267 | 99.8454 | 90.8763 | 9043 | 20292 | 9041 | 14 | 5 | 35.7143 | |
| mlin-fermikit | SNP | * | map_l100_m2_e1 | het | 71.9034 | 56.5824 | 98.6024 | 57.9966 | 26536 | 20362 | 26528 | 376 | 11 | 2.9255 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 55.4931 | 52.6341 | 58.6805 | 53.0447 | 22809 | 20526 | 37552 | 26442 | 22338 | 84.4792 | |
| gduggal-bwaplat | SNP | ti | * | het | 98.9567 | 98.3966 | 99.5232 | 28.0886 | 1261337 | 20554 | 1261923 | 6046 | 762 | 12.6034 | |
| asubramanian-gatk | SNP | ti | map_l125_m2_e0 | * | 48.4647 | 32.0015 | 99.8144 | 91.1697 | 9683 | 20575 | 9681 | 18 | 6 | 33.3333 | |
| asubramanian-gatk | SNP | ti | map_l125_m2_e1 | * | 48.6953 | 32.2026 | 99.8174 | 91.1355 | 9844 | 20725 | 9842 | 18 | 6 | 33.3333 | |
| asubramanian-gatk | SNP | ti | map_siren | het | 80.0204 | 66.7709 | 99.8298 | 71.1364 | 41653 | 20729 | 41647 | 71 | 23 | 32.3944 | |
| ckim-isaac | SNP | * | map_siren | het | 87.0731 | 77.2065 | 99.8309 | 53.7836 | 70251 | 20740 | 70263 | 119 | 18 | 15.1261 | |
| anovak-vg | INDEL | * | HG002compoundhet | * | 36.9041 | 30.6776 | 46.3018 | 57.6241 | 9191 | 20769 | 15813 | 18339 | 13521 | 73.7281 | |
| ckim-vqsr | SNP | * | map_l125_m1_e0 | * | 69.8181 | 53.9590 | 98.8800 | 88.0425 | 24458 | 20869 | 24455 | 277 | 5 | 1.8051 | |
| ckim-isaac | SNP | tv | HG002complexvar | * | 95.4727 | 91.5159 | 99.7871 | 19.3101 | 225271 | 20884 | 225437 | 481 | 401 | 83.3680 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 46.5132 | 44.6362 | 48.5550 | 51.5466 | 16918 | 20984 | 16885 | 17890 | 17519 | 97.9262 | |
| ckim-vqsr | SNP | * | map_l125_m2_e0 | * | 70.4819 | 54.7482 | 98.9056 | 88.7400 | 25580 | 21143 | 25577 | 283 | 6 | 2.1201 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 45.3446 | 44.0478 | 46.7201 | 60.8982 | 16695 | 21207 | 16673 | 19014 | 18688 | 98.2855 | |
| mlin-fermikit | SNP | * | HG002complexvar | * | 98.2239 | 97.1863 | 99.2840 | 18.6883 | 733159 | 21226 | 733074 | 5287 | 5014 | 94.8364 | |
| ckim-vqsr | SNP | * | map_l125_m2_e1 | * | 70.6297 | 54.9235 | 98.9163 | 88.7326 | 25925 | 21277 | 25922 | 284 | 6 | 2.1127 | |
| gduggal-bwaplat | SNP | * | map_l100_m1_e0 | * | 82.4562 | 70.4418 | 99.4115 | 81.1732 | 51002 | 21401 | 51014 | 302 | 83 | 27.4834 | |
| gduggal-bwaplat | SNP | * | map_l100_m2_e0 | * | 82.8217 | 70.9791 | 99.4075 | 82.3292 | 52499 | 21465 | 52511 | 313 | 86 | 27.4760 | |
| ciseli-custom | INDEL | * | * | het | 87.9280 | 88.9146 | 86.9631 | 62.2120 | 172609 | 21520 | 174074 | 26096 | 13945 | 53.4373 | |
| gduggal-bwaplat | SNP | * | map_l100_m2_e1 | * | 82.9577 | 71.1789 | 99.4078 | 82.2985 | 53197 | 21540 | 53209 | 317 | 87 | 27.4448 | |
| ckim-isaac | SNP | ti | HG002complexvar | het | 96.4266 | 93.1447 | 99.9482 | 15.3403 | 293188 | 21578 | 293343 | 152 | 18 | 11.8421 | |
| gduggal-snapplat | INDEL | I1_5 | * | het | 74.5979 | 72.6661 | 76.6351 | 71.5717 | 57436 | 21605 | 58022 | 17690 | 370 | 2.0916 | |
| gduggal-bwavard | SNP | * | HG002complexvar | * | 98.3118 | 97.1354 | 99.5171 | 19.6107 | 732775 | 21610 | 712182 | 3456 | 2272 | 65.7407 | |
| ckim-isaac | INDEL | * | * | * | 95.8099 | 93.7006 | 98.0163 | 48.2658 | 322838 | 21704 | 321857 | 6514 | 4603 | 70.6632 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 54.3121 | 49.8996 | 59.5807 | 47.5940 | 21624 | 21711 | 28700 | 19470 | 15099 | 77.5501 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 51.2406 | 42.6785 | 64.1003 | 68.1692 | 16176 | 21726 | 19332 | 10827 | 4241 | 39.1706 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 51.4833 | 49.7958 | 53.2893 | 59.9443 | 21579 | 21756 | 21523 | 18866 | 18163 | 96.2737 | |
| ckim-vqsr | SNP | * | map_siren | homalt | 75.3334 | 60.4322 | 99.9880 | 62.9988 | 33332 | 21824 | 33323 | 4 | 4 | 100.0000 | |
| ciseli-custom | INDEL | I1_5 | * | * | 87.1708 | 85.4583 | 88.9534 | 56.1825 | 128754 | 21909 | 128479 | 15955 | 13768 | 86.2927 | |
| asubramanian-gatk | SNP | tv | * | * | 98.7904 | 97.7276 | 99.8765 | 24.3508 | 947655 | 22035 | 947577 | 1172 | 61 | 5.2048 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 50.3682 | 49.0920 | 51.7125 | 68.7841 | 21274 | 22061 | 21244 | 19837 | 19439 | 97.9936 | |
| anovak-vg | INDEL | * | HG002complexvar | * | 72.8155 | 71.0364 | 74.6860 | 53.4026 | 54654 | 22284 | 56069 | 19004 | 16560 | 87.1395 | |
| gduggal-snapvard | SNP | ti | * | * | 99.1158 | 98.9272 | 99.3052 | 22.3384 | 2063143 | 22374 | 2054412 | 14373 | 2372 | 16.5032 | |
| gduggal-snapplat | SNP | ti | * | * | 99.1814 | 98.9158 | 99.4485 | 24.4080 | 2062907 | 22611 | 2063333 | 11443 | 1808 | 15.8001 | |
| ciseli-custom | SNP | * | HG002complexvar | * | 95.9712 | 96.9985 | 94.9655 | 20.7202 | 731742 | 22643 | 718679 | 38100 | 8358 | 21.9370 | |
| asubramanian-gatk | SNP | ti | * | het | 99.0688 | 98.2225 | 99.9298 | 21.0842 | 1259105 | 22786 | 1259055 | 884 | 67 | 7.5792 | |