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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
3301-3350 / 86044 show all | |||||||||||||||
| ckim-dragen | INDEL | * | * | hetalt | 95.9597 | 92.4793 | 99.7124 | 57.0557 | 23339 | 1898 | 23575 | 68 | 68 | 100.0000 | |
| ciseli-custom | INDEL | * | HG002complexvar | homalt | 81.7869 | 88.0268 | 76.3731 | 56.3608 | 23791 | 3236 | 23555 | 7287 | 5323 | 73.0479 | |
| rpoplin-dv42 | INDEL | I6_15 | * | * | 96.3018 | 94.7670 | 97.8872 | 49.6208 | 23524 | 1299 | 23536 | 508 | 491 | 96.6535 | |
| qzeng-custom | SNP | ti | map_l100_m1_e0 | het | 87.3398 | 78.8625 | 97.8592 | 80.1613 | 23613 | 6329 | 23496 | 514 | 414 | 80.5447 | |
| ciseli-custom | SNP | tv | map_siren | het | 84.4100 | 82.1595 | 86.7874 | 65.3031 | 23505 | 5104 | 23489 | 3576 | 93 | 2.6007 | |
| egarrison-hhga | INDEL | * | HG002compoundhet | * | 77.4600 | 76.5788 | 78.3617 | 71.3882 | 22943 | 7017 | 23485 | 6485 | 6131 | 94.5412 | |
| ciseli-custom | SNP | ti | map_l100_m1_e0 | het | 83.0208 | 78.5018 | 88.0918 | 73.6464 | 23505 | 6437 | 23480 | 3174 | 86 | 2.7095 | |
| ciseli-custom | SNP | * | map_l150_m2_e0 | * | 78.3493 | 73.8101 | 83.4833 | 81.5713 | 23510 | 8342 | 23473 | 4644 | 1150 | 24.7631 | |
| ckim-vqsr | SNP | ti | map_l100_m2_e1 | het | 85.9506 | 75.8301 | 99.1886 | 83.8404 | 23477 | 7483 | 23472 | 192 | 12 | 6.2500 | |
| asubramanian-gatk | INDEL | * | HG002compoundhet | hetalt | 95.7396 | 92.5814 | 99.1208 | 52.6709 | 23312 | 1868 | 23449 | 208 | 188 | 90.3846 | |
| gduggal-bwaplat | SNP | * | HG002compoundhet | * | 88.4972 | 90.4035 | 86.6696 | 48.3543 | 23344 | 2478 | 23445 | 3606 | 414 | 11.4809 | |
| bgallagher-sentieon | INDEL | * | HG002compoundhet | hetalt | 96.0304 | 92.5536 | 99.7785 | 50.2300 | 23305 | 1875 | 23427 | 52 | 52 | 100.0000 | |
| ckim-dragen | INDEL | * | HG002compoundhet | hetalt | 96.0007 | 92.5060 | 99.7699 | 50.0702 | 23293 | 1887 | 23417 | 54 | 54 | 100.0000 | |
| anovak-vg | SNP | * | map_l100_m2_e1 | homalt | 91.8309 | 85.3756 | 99.3422 | 61.4163 | 23731 | 4065 | 23410 | 155 | 133 | 85.8065 | |
| qzeng-custom | SNP | * | map_l100_m0_e0 | * | 82.6366 | 72.0228 | 96.9194 | 83.3401 | 23653 | 9188 | 23407 | 744 | 630 | 84.6774 | |
| gduggal-snapfb | INDEL | * | HG002compoundhet | het | 71.1390 | 60.5520 | 86.2126 | 38.8614 | 2479 | 1615 | 23405 | 3743 | 1778 | 47.5020 | |
| gduggal-snapplat | SNP | * | HG002compoundhet | * | 83.9950 | 90.1789 | 78.6048 | 56.2142 | 23286 | 2536 | 23381 | 6364 | 715 | 11.2351 | |
| rpoplin-dv42 | INDEL | * | * | hetalt | 95.6899 | 92.3010 | 99.3372 | 57.2847 | 23294 | 1943 | 23381 | 156 | 151 | 96.7949 | |
| ltrigg-rtg1 | INDEL | I6_15 | * | * | 97.4037 | 95.4115 | 99.4808 | 44.5038 | 23684 | 1139 | 23374 | 122 | 76 | 62.2951 | |
| ckim-gatk | INDEL | * | * | hetalt | 95.5159 | 91.6749 | 99.6928 | 55.9040 | 23136 | 2101 | 23365 | 72 | 70 | 97.2222 | |
| gduggal-snapplat | SNP | tv | map_l100_m2_e0 | * | 94.8967 | 93.3008 | 96.5482 | 79.3757 | 23356 | 1677 | 23355 | 835 | 405 | 48.5030 | |
| ckim-vqsr | INDEL | * | * | hetalt | 95.4941 | 91.6313 | 99.6969 | 55.9167 | 23125 | 2112 | 23354 | 71 | 70 | 98.5915 | |
| mlin-fermikit | SNP | * | map_l125_m2_e0 | * | 63.6201 | 49.9497 | 87.5929 | 61.7303 | 23338 | 23385 | 23333 | 3305 | 2908 | 87.9879 | |
| rpoplin-dv42 | INDEL | * | HG002compoundhet | hetalt | 95.8717 | 92.3153 | 99.7130 | 50.6553 | 23245 | 1935 | 23276 | 67 | 66 | 98.5075 | |
| gduggal-snapplat | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 75.2906 | 65.9666 | 87.6843 | 78.0956 | 20292 | 10469 | 23253 | 3266 | 1977 | 60.5328 | |
| jmaeng-gatk | INDEL | * | * | hetalt | 95.2835 | 91.2311 | 99.7126 | 56.1602 | 23024 | 2213 | 23247 | 67 | 66 | 98.5075 | |
| raldana-dualsentieon | INDEL | * | * | hetalt | 95.3681 | 91.1677 | 99.9742 | 56.5406 | 23008 | 2229 | 23230 | 6 | 6 | 100.0000 | |
| ckim-gatk | INDEL | * | HG002compoundhet | hetalt | 95.5666 | 91.7156 | 99.7551 | 50.3022 | 23094 | 2086 | 23217 | 57 | 57 | 100.0000 | |
| ckim-vqsr | INDEL | * | HG002compoundhet | hetalt | 95.5428 | 91.6720 | 99.7550 | 50.3140 | 23083 | 2097 | 23206 | 57 | 57 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_l100_m2_e0 | het | 85.8634 | 75.7005 | 99.1784 | 83.8574 | 23181 | 7441 | 23176 | 192 | 12 | 6.2500 | |
| anovak-vg | SNP | * | map_l100_m2_e0 | homalt | 91.7943 | 85.3141 | 99.3397 | 61.4498 | 23481 | 4042 | 23170 | 154 | 133 | 86.3636 | |
| gduggal-bwaplat | SNP | ti | map_l100_m1_e0 | het | 86.8689 | 77.3061 | 99.1314 | 82.6916 | 23147 | 6795 | 23169 | 203 | 61 | 30.0493 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 91.8860 | 90.8028 | 92.9954 | 40.2854 | 22283 | 2257 | 23114 | 1741 | 1173 | 67.3751 | |
| jmaeng-gatk | INDEL | * | HG002compoundhet | hetalt | 95.3319 | 91.2708 | 99.7711 | 50.5352 | 22982 | 2198 | 23098 | 53 | 53 | 100.0000 | |
| raldana-dualsentieon | INDEL | * | HG002compoundhet | hetalt | 95.3715 | 91.1597 | 99.9913 | 50.4712 | 22954 | 2226 | 23068 | 2 | 2 | 100.0000 | |
| gduggal-bwavard | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 85.7527 | 75.1764 | 99.7922 | 61.3457 | 23125 | 7636 | 23046 | 48 | 38 | 79.1667 | |
| astatham-gatk | SNP | ti | map_l100_m1_e0 | het | 86.8541 | 76.8887 | 99.7875 | 73.5726 | 23022 | 6920 | 23015 | 49 | 23 | 46.9388 | |
| ckim-gatk | SNP | * | map_l125_m1_e0 | het | 88.2494 | 81.0510 | 96.8511 | 86.4318 | 23012 | 5380 | 23006 | 748 | 54 | 7.2193 | |
| jmaeng-gatk | SNP | * | map_l125_m1_e0 | het | 88.1536 | 81.0158 | 96.6706 | 86.7253 | 23002 | 5390 | 22996 | 792 | 51 | 6.4394 | |
| jmaeng-gatk | SNP | ti | map_l125_m2_e1 | * | 85.1656 | 75.2364 | 98.1141 | 84.6685 | 22999 | 7570 | 22995 | 442 | 41 | 9.2760 | |
| ckim-gatk | SNP | ti | map_l125_m2_e1 | * | 85.1950 | 75.2331 | 98.1978 | 84.5085 | 22998 | 7571 | 22994 | 422 | 45 | 10.6635 | |
| ltrigg-rtg1 | INDEL | * | HG002compoundhet | hetalt | 95.2514 | 91.2113 | 99.6659 | 56.7239 | 22967 | 2213 | 22971 | 77 | 76 | 98.7013 | |
| ckim-isaac | INDEL | * | HG002compoundhet | * | 82.5676 | 79.0154 | 86.4543 | 46.0363 | 23673 | 6287 | 22964 | 3598 | 3236 | 89.9389 | |
| asubramanian-gatk | SNP | ti | map_siren | homalt | 75.4177 | 60.5364 | 100.0000 | 61.0156 | 22953 | 14963 | 22947 | 0 | 0 | ||
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.0981 | 96.8525 | 99.3761 | 51.0664 | 13324 | 433 | 22937 | 144 | 122 | 84.7222 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.0981 | 96.8525 | 99.3761 | 51.0664 | 13324 | 433 | 22937 | 144 | 122 | 84.7222 | |
| ckim-vqsr | SNP | tv | map_siren | het | 88.5833 | 80.0482 | 99.1556 | 77.7872 | 22901 | 5708 | 22897 | 195 | 6 | 3.0769 | |
| ckim-isaac | INDEL | D6_15 | * | * | 91.5791 | 87.9580 | 95.5112 | 39.9809 | 22950 | 3142 | 22852 | 1074 | 785 | 73.0912 | |
| gduggal-snapplat | SNP | tv | map_l100_m1_e0 | * | 94.8170 | 93.1840 | 96.5083 | 77.9815 | 22831 | 1670 | 22830 | 826 | 404 | 48.9104 | |
| ciseli-custom | SNP | ti | map_l125_m1_e0 | * | 81.8023 | 77.7842 | 86.2580 | 75.7269 | 22818 | 6517 | 22798 | 3632 | 966 | 26.5969 | |