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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
2801-2850 / 86044 show all | |||||||||||||||
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.6609 | 96.7085 | 98.6322 | 60.0245 | 63200 | 2151 | 78454 | 1088 | 926 | 85.1103 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.6609 | 96.7085 | 98.6322 | 60.0245 | 63200 | 2151 | 78454 | 1088 | 926 | 85.1103 | |
| anovak-vg | INDEL | * | map_l100_m2_e1 | * | 72.2208 | 72.4441 | 71.9990 | 84.9008 | 2721 | 1035 | 2795 | 1087 | 655 | 60.2576 | |
| qzeng-custom | INDEL | * | HG002complexvar | het | 97.8163 | 97.7928 | 97.8398 | 56.2530 | 45192 | 1020 | 49233 | 1087 | 393 | 36.1546 | |
| gduggal-bwaplat | INDEL | D1_5 | * | * | 93.7723 | 88.9284 | 99.1742 | 65.9734 | 130498 | 16247 | 130430 | 1086 | 611 | 56.2615 | |
| mlin-fermikit | SNP | tv | map_l100_m0_e0 | homalt | 61.5471 | 56.9943 | 66.8904 | 49.7701 | 2192 | 1654 | 2192 | 1085 | 1011 | 93.1797 | |
| gduggal-snapplat | SNP | tv | map_siren | * | 96.3584 | 95.1687 | 97.5782 | 71.5667 | 43711 | 2219 | 43717 | 1085 | 492 | 45.3456 | |
| gduggal-snapplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 79.9814 | 83.6479 | 76.6228 | 91.4225 | 3545 | 693 | 3553 | 1084 | 49 | 4.5203 | |
| anovak-vg | SNP | tv | map_l250_m2_e1 | * | 74.0862 | 80.7956 | 68.4057 | 91.5330 | 2356 | 560 | 2347 | 1084 | 260 | 23.9852 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 37.9771 | 33.2554 | 44.2615 | 81.8105 | 711 | 1427 | 860 | 1083 | 11 | 1.0157 | |
| gduggal-bwaplat | SNP | tv | HG002compoundhet | * | 87.7776 | 87.6611 | 87.8944 | 56.9502 | 7822 | 1101 | 7856 | 1082 | 151 | 13.9556 | |
| ckim-gatk | SNP | * | map_l100_m2_e1 | het | 92.4550 | 87.9526 | 97.4432 | 82.5075 | 41248 | 5650 | 41237 | 1082 | 78 | 7.2089 | |
| cchapple-custom | SNP | ti | map_l100_m2_e0 | * | 97.7249 | 97.6634 | 97.7865 | 68.9717 | 47817 | 1144 | 47800 | 1082 | 275 | 25.4159 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 33.4346 | 30.2162 | 37.4205 | 71.0821 | 643 | 1485 | 647 | 1082 | 1074 | 99.2606 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 50.2132 | 87.3684 | 35.2307 | 72.3584 | 581 | 84 | 588 | 1081 | 1065 | 98.5199 | |
| qzeng-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 93.0202 | 94.4334 | 91.6486 | 40.7109 | 8991 | 530 | 11863 | 1081 | 1022 | 94.5421 | |
| ckim-dragen | SNP | * | map_l125_m2_e1 | * | 98.4159 | 99.0996 | 97.7415 | 74.8940 | 46777 | 425 | 46783 | 1081 | 120 | 11.1008 | |
| cchapple-custom | SNP | ti | map_l100_m2_e0 | het | 97.1509 | 97.7892 | 96.5210 | 73.0558 | 29945 | 677 | 29963 | 1080 | 273 | 25.2778 | |
| gduggal-snapplat | SNP | ti | map_l125_m2_e1 | * | 94.3667 | 92.4859 | 96.3257 | 81.1411 | 28272 | 2297 | 28287 | 1079 | 590 | 54.6803 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 87.3183 | 98.1551 | 78.6365 | 59.0389 | 3937 | 74 | 3968 | 1078 | 33 | 3.0612 | |
| anovak-vg | SNP | tv | map_l250_m2_e1 | het | 71.4817 | 86.2595 | 61.0268 | 91.9453 | 1695 | 270 | 1688 | 1078 | 256 | 23.7477 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 86.0468 | 96.6402 | 77.5463 | 56.5992 | 3164 | 110 | 3723 | 1078 | 1046 | 97.0315 | |
| ciseli-custom | SNP | tv | map_l100_m0_e0 | het | 74.3908 | 68.0559 | 82.0260 | 79.9973 | 4915 | 2307 | 4915 | 1077 | 42 | 3.8997 | |
| ckim-gatk | SNP | * | map_l100_m2_e0 | het | 92.3834 | 87.8381 | 97.4248 | 82.5144 | 40756 | 5643 | 40745 | 1077 | 78 | 7.2423 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 30.6992 | 20.9726 | 57.2507 | 58.7917 | 1449 | 5460 | 1441 | 1076 | 1033 | 96.0037 | |
| gduggal-snapplat | SNP | ti | map_l125_m2_e0 | * | 94.3195 | 92.4218 | 96.2968 | 81.1125 | 27965 | 2293 | 27980 | 1076 | 588 | 54.6468 | |
| anovak-vg | INDEL | I6_15 | HG002complexvar | homalt | 62.2576 | 83.8550 | 49.5068 | 39.2928 | 1018 | 196 | 1054 | 1075 | 989 | 92.0000 | |
| ckim-dragen | SNP | * | map_l125_m2_e0 | * | 98.4092 | 99.0947 | 97.7332 | 74.8209 | 46300 | 423 | 46306 | 1074 | 120 | 11.1732 | |
| gduggal-snapfb | SNP | * | map_l150_m1_e0 | het | 95.7011 | 96.8575 | 94.5719 | 74.7840 | 18709 | 607 | 18712 | 1074 | 507 | 47.2067 | |
| ckim-isaac | INDEL | D6_15 | * | * | 91.5791 | 87.9580 | 95.5112 | 39.9809 | 22950 | 3142 | 22852 | 1074 | 785 | 73.0912 | |
| ckim-vqsr | SNP | tv | * | het | 99.3645 | 98.9162 | 99.8170 | 31.1430 | 585283 | 6413 | 585211 | 1073 | 39 | 3.6347 | |
| anovak-vg | SNP | tv | map_l250_m2_e0 | * | 73.9754 | 80.6384 | 68.3294 | 91.4956 | 2324 | 558 | 2315 | 1073 | 260 | 24.2311 | |
| ndellapenna-hhga | INDEL | * | HG002compoundhet | homalt | 54.9045 | 96.9388 | 38.2979 | 70.2430 | 665 | 21 | 666 | 1073 | 874 | 81.4539 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.5215 | 99.3655 | 97.6917 | 75.5520 | 45412 | 290 | 45412 | 1073 | 63 | 5.8714 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.5215 | 99.3655 | 97.6917 | 75.5520 | 45412 | 290 | 45412 | 1073 | 63 | 5.8714 | |
| jpowers-varprowl | SNP | * | map_l100_m1_e0 | het | 97.3402 | 97.0590 | 97.6230 | 72.4758 | 44025 | 1334 | 44027 | 1072 | 263 | 24.5336 | |
| gduggal-bwaplat | INDEL | * | HG002compoundhet | * | 80.3779 | 69.5961 | 95.1127 | 70.6361 | 20851 | 9109 | 20843 | 1071 | 677 | 63.2120 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 81.3386 | 70.4818 | 96.1491 | 65.8212 | 26714 | 11188 | 26716 | 1070 | 602 | 56.2617 | |
| anovak-vg | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 36.9586 | 26.4511 | 61.3160 | 39.5013 | 638 | 1774 | 1696 | 1070 | 978 | 91.4019 | |
| ckim-isaac | SNP | * | HG002complexvar | * | 95.9550 | 92.3552 | 99.8467 | 16.9098 | 696714 | 57671 | 697067 | 1070 | 847 | 79.1589 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 92.6354 | 91.1441 | 94.1762 | 35.9848 | 16642 | 1617 | 17303 | 1070 | 870 | 81.3084 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 92.0469 | 94.0521 | 90.1255 | 39.8201 | 9788 | 619 | 9766 | 1070 | 1036 | 96.8224 | |
| ghariani-varprowl | SNP | * | map_l150_m2_e1 | * | 97.6142 | 98.5067 | 96.7377 | 80.7467 | 31729 | 481 | 31729 | 1070 | 224 | 20.9346 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 32.7321 | 22.6516 | 58.9793 | 55.7780 | 1565 | 5344 | 1537 | 1069 | 1020 | 95.4163 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 68.4389 | 86.7948 | 56.4917 | 55.1969 | 1400 | 213 | 1388 | 1069 | 1020 | 95.4163 | |
| jpowers-varprowl | INDEL | I1_5 | * | homalt | 94.7762 | 91.6661 | 98.1046 | 39.3198 | 55392 | 5036 | 55332 | 1069 | 948 | 88.6810 | |
| anovak-vg | INDEL | * | map_l100_m2_e0 | * | 72.4393 | 72.7593 | 72.1222 | 84.8313 | 2687 | 1006 | 2763 | 1068 | 640 | 59.9251 | |
| anovak-vg | SNP | tv | map_l250_m2_e0 | het | 71.3723 | 86.1340 | 60.9301 | 91.9101 | 1671 | 269 | 1664 | 1067 | 256 | 23.9925 | |
| ghariani-varprowl | INDEL | I16_PLUS | HG002compoundhet | * | 1.7907 | 1.3532 | 2.6460 | 56.7653 | 29 | 2114 | 29 | 1067 | 1059 | 99.2502 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 79.7753 | 86.5705 | 73.9693 | 64.8607 | 3062 | 475 | 3032 | 1067 | 886 | 83.0366 | |