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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
83301-83350 / 86044 show all | |||||||||||||||
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 34.4349 | 24.2003 | 59.6699 | 64.4061 | 1672 | 5237 | 1663 | 1124 | 1036 | 92.1708 | |
| gduggal-snapfb | SNP | * | map_l150_m1_e0 | * | 96.2111 | 96.1025 | 96.3199 | 76.8067 | 29416 | 1193 | 29419 | 1124 | 527 | 46.8861 | |
| jpowers-varprowl | SNP | * | map_l100_m2_e0 | het | 97.3254 | 97.0883 | 97.5636 | 74.0402 | 45048 | 1351 | 45050 | 1125 | 264 | 23.4667 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 64.6659 | 50.7487 | 89.1009 | 66.3976 | 9219 | 8947 | 9197 | 1125 | 989 | 87.9111 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 64.6659 | 50.7487 | 89.1009 | 66.3976 | 9219 | 8947 | 9197 | 1125 | 989 | 87.9111 | |
| jli-custom | SNP | ti | * | het | 99.9331 | 99.9539 | 99.9123 | 17.4772 | 1281300 | 591 | 1281266 | 1125 | 87 | 7.7333 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 68.5238 | 70.7333 | 66.4482 | 68.8856 | 2122 | 878 | 2230 | 1126 | 242 | 21.4920 | |
| asubramanian-gatk | SNP | tv | * | het | 98.8211 | 97.8557 | 99.8057 | 26.7081 | 579008 | 12688 | 578944 | 1127 | 42 | 3.7267 | |
| jmaeng-gatk | SNP | * | map_l100_m2_e0 | het | 92.2826 | 87.7562 | 97.3014 | 82.8537 | 40718 | 5681 | 40707 | 1129 | 70 | 6.2002 | |
| ciseli-custom | SNP | ti | map_l125_m2_e1 | homalt | 88.7321 | 87.6244 | 89.8682 | 67.8893 | 10040 | 1418 | 10023 | 1130 | 915 | 80.9735 | |
| ciseli-custom | SNP | ti | map_l250_m2_e1 | * | 70.8062 | 67.0213 | 75.0441 | 92.1332 | 3402 | 1674 | 3401 | 1131 | 218 | 19.2750 | |
| cchapple-custom | SNP | * | map_l150_m2_e1 | het | 95.7763 | 96.9945 | 94.5883 | 81.9692 | 19751 | 612 | 19768 | 1131 | 246 | 21.7507 | |
| anovak-vg | INDEL | D16_PLUS | * | * | 64.9199 | 56.1321 | 76.9701 | 52.6377 | 3808 | 2976 | 3780 | 1131 | 815 | 72.0601 | |
| cchapple-custom | SNP | * | map_l150_m2_e1 | * | 96.6680 | 96.8395 | 96.4971 | 78.8652 | 31192 | 1018 | 31184 | 1132 | 247 | 21.8198 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 43.0574 | 79.0698 | 29.5836 | 47.9961 | 476 | 126 | 476 | 1133 | 1076 | 94.9691 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 26.2261 | 75.3623 | 15.8754 | 79.0455 | 208 | 68 | 214 | 1134 | 22 | 1.9400 | |
| gduggal-snapvard | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 75.9223 | 95.2075 | 63.1339 | 85.1688 | 1927 | 97 | 1942 | 1134 | 22 | 1.9400 | |
| mlin-fermikit | SNP | tv | map_l100_m0_e0 | * | 58.6013 | 45.6875 | 81.6920 | 55.0247 | 5064 | 6020 | 5060 | 1134 | 1011 | 89.1534 | |
| jpowers-varprowl | SNP | * | map_l100_m2_e1 | het | 97.3347 | 97.1001 | 97.5704 | 74.0696 | 45538 | 1360 | 45540 | 1134 | 265 | 23.3686 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 53.5889 | 45.7759 | 64.6178 | 56.5306 | 997 | 1181 | 2071 | 1134 | 332 | 29.2769 | |
| anovak-vg | INDEL | D6_15 | * | homalt | 75.9353 | 71.8780 | 80.4782 | 54.2097 | 4547 | 1779 | 4679 | 1135 | 811 | 71.4537 | |
| jlack-gatk | SNP | tv | map_l150_m1_e0 | * | 94.3885 | 98.6712 | 90.4622 | 83.2378 | 10767 | 145 | 10765 | 1135 | 67 | 5.9031 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 94.4069 | 93.3537 | 95.4842 | 40.6110 | 22909 | 1631 | 24020 | 1136 | 871 | 76.6725 | |
| anovak-vg | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 68.7372 | 91.6432 | 54.9921 | 52.9543 | 976 | 89 | 1388 | 1136 | 1069 | 94.1021 | |
| jmaeng-gatk | SNP | * | map_l100_m2_e1 | het | 92.3544 | 87.8737 | 97.3167 | 82.8441 | 41211 | 5687 | 41200 | 1136 | 70 | 6.1620 | |
| gduggal-snapfb | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 88.7788 | 99.0616 | 80.4299 | 50.4389 | 4645 | 44 | 4677 | 1138 | 26 | 2.2847 | |
| gduggal-snapfb | SNP | * | map_l150_m2_e0 | * | 96.3250 | 96.2326 | 96.4176 | 78.3427 | 30652 | 1200 | 30655 | 1139 | 529 | 46.4442 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 89.1553 | 96.5499 | 82.8127 | 57.5437 | 5485 | 196 | 5488 | 1139 | 1055 | 92.6251 | |
| ghariani-varprowl | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 96.5798 | 99.2191 | 94.0773 | 54.5022 | 18041 | 142 | 18092 | 1139 | 144 | 12.6427 | |
| jmaeng-gatk | SNP | * | map_l100_m2_e0 | * | 89.4136 | 82.0994 | 98.1585 | 79.7900 | 60724 | 13240 | 60713 | 1139 | 79 | 6.9359 | |
| gduggal-snapvard | INDEL | D6_15 | HG002complexvar | het | 73.6293 | 75.8333 | 71.5498 | 53.1509 | 2366 | 754 | 2867 | 1140 | 832 | 72.9825 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 68.8039 | 91.6288 | 55.0827 | 70.2532 | 1412 | 129 | 1398 | 1140 | 1083 | 95.0000 | |
| qzeng-custom | INDEL | I6_15 | HG002compoundhet | * | 75.9258 | 69.2571 | 84.0157 | 36.6439 | 6078 | 2698 | 5992 | 1140 | 884 | 77.5439 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.9862 | 97.5782 | 92.5283 | 63.5798 | 14263 | 354 | 14130 | 1141 | 1110 | 97.2831 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 42.2458 | 32.6120 | 59.9579 | 69.4254 | 1733 | 3581 | 1710 | 1142 | 1085 | 95.0088 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.9919 | 97.7475 | 98.2375 | 67.0385 | 63879 | 1472 | 63652 | 1142 | 1030 | 90.1926 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.9919 | 97.7475 | 98.2375 | 67.0385 | 63879 | 1472 | 63652 | 1142 | 1030 | 90.1926 | |
| jlack-gatk | SNP | tv | map_l150_m2_e0 | het | 92.1348 | 98.8831 | 86.2488 | 87.0469 | 7171 | 81 | 7169 | 1143 | 59 | 5.1619 | |
| ciseli-custom | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 70.5551 | 95.3826 | 55.9831 | 73.4742 | 1446 | 70 | 1455 | 1144 | 27 | 2.3601 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 73.3800 | 60.1280 | 94.1249 | 85.4676 | 18327 | 12153 | 18328 | 1144 | 321 | 28.0594 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 73.3800 | 60.1280 | 94.1249 | 85.4676 | 18327 | 12153 | 18328 | 1144 | 321 | 28.0594 | |
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 92.1861 | 94.9340 | 89.5928 | 65.6359 | 9201 | 491 | 9857 | 1145 | 571 | 49.8690 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 48.8268 | 34.5142 | 83.4201 | 65.6853 | 6099 | 11572 | 5766 | 1146 | 527 | 45.9860 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 48.8268 | 34.5142 | 83.4201 | 65.6853 | 6099 | 11572 | 5766 | 1146 | 527 | 45.9860 | |
| jmaeng-gatk | SNP | * | map_l100_m2_e1 | * | 89.5016 | 82.2404 | 98.1693 | 79.7702 | 61464 | 13273 | 61453 | 1146 | 79 | 6.8935 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.4653 | 94.4068 | 92.5425 | 38.8281 | 6971 | 413 | 14221 | 1146 | 906 | 79.0576 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 34.4736 | 24.7232 | 56.9231 | 34.0999 | 737 | 2244 | 1517 | 1148 | 971 | 84.5819 | |
| anovak-vg | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 35.7126 | 30.6097 | 42.8571 | 50.7598 | 738 | 1673 | 861 | 1148 | 864 | 75.2613 | |
| gduggal-snapfb | SNP | * | map_l150_m2_e1 | * | 96.3459 | 96.2620 | 96.4300 | 78.3975 | 31006 | 1204 | 31009 | 1148 | 531 | 46.2544 | |
| anovak-vg | INDEL | * | map_siren | homalt | 77.1234 | 89.6798 | 67.6512 | 75.5300 | 2381 | 274 | 2405 | 1150 | 1080 | 93.9130 | |