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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
67901-67950 / 86044 show all | |||||||||||||||
| ghariani-varprowl | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.2067 | 99.6183 | 94.9091 | 73.8841 | 522 | 2 | 522 | 28 | 19 | 67.8571 | |
| ghariani-varprowl | SNP | tv | map_l150_m1_e0 | homalt | 98.6612 | 98.0487 | 99.2815 | 73.6565 | 3869 | 77 | 3869 | 28 | 15 | 53.5714 | |
| ghariani-varprowl | SNP | tv | map_l150_m2_e0 | homalt | 98.6939 | 98.0896 | 99.3057 | 75.8431 | 4005 | 78 | 4005 | 28 | 15 | 53.5714 | |
| ghariani-varprowl | SNP | tv | map_l150_m2_e1 | homalt | 98.7101 | 98.1132 | 99.3144 | 75.8171 | 4056 | 78 | 4056 | 28 | 15 | 53.5714 | |
| hfeng-pmm1 | INDEL | * | map_l100_m2_e0 | het | 97.7908 | 96.8357 | 98.7649 | 83.7444 | 2234 | 73 | 2239 | 28 | 4 | 14.2857 | |
| hfeng-pmm1 | INDEL | * | map_l100_m2_e1 | het | 97.8030 | 96.8417 | 98.7837 | 83.8513 | 2269 | 74 | 2274 | 28 | 4 | 14.2857 | |
| gduggal-snapvard | INDEL | D1_5 | map_siren | homalt | 93.2963 | 89.3836 | 97.5673 | 70.4493 | 1044 | 124 | 1123 | 28 | 26 | 92.8571 | |
| gduggal-snapvard | INDEL | I6_15 | HG002complexvar | homalt | 45.0525 | 29.6785 | 93.4732 | 26.9165 | 360 | 853 | 401 | 28 | 27 | 96.4286 | |
| gduggal-snapfb | INDEL | I6_15 | map_siren | * | 79.8374 | 72.4590 | 88.8889 | 71.7489 | 221 | 84 | 224 | 28 | 26 | 92.8571 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 73.8318 | 0 | 0 | 0 | 28 | 0 | 0.0000 | ||
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 29.2460 | 17.8797 | 80.2817 | 70.2306 | 113 | 519 | 114 | 28 | 24 | 85.7143 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 96.6882 | 99.4307 | 94.0928 | 82.7133 | 524 | 3 | 446 | 28 | 28 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.3117 | 93.2057 | 99.6319 | 25.1721 | 7545 | 550 | 7579 | 28 | 28 | 100.0000 | |
| astatham-gatk | SNP | ti | map_l150_m0_e0 | het | 89.8677 | 82.0483 | 99.3346 | 85.7819 | 4182 | 915 | 4180 | 28 | 9 | 32.1429 | |
| astatham-gatk | SNP | ti | segdup | het | 98.8338 | 97.9219 | 99.7628 | 90.8470 | 11780 | 250 | 11778 | 28 | 2 | 7.1429 | |
| asubramanian-gatk | INDEL | * | segdup | * | 98.4487 | 98.0047 | 98.8968 | 98.3850 | 2505 | 51 | 2510 | 28 | 10 | 35.7143 | |
| asubramanian-gatk | INDEL | C16_PLUS | HG002complexvar | het | 0.0000 | 0.0000 | 75.6522 | 0 | 0 | 0 | 28 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C16_PLUS | HG002compoundhet | * | 0.0000 | 0.0000 | 48.1481 | 0 | 0 | 0 | 28 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 84.0000 | 0 | 0 | 0 | 28 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 83.2335 | 0 | 0 | 0 | 28 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.8022 | 98.1618 | 97.4453 | 67.6027 | 1068 | 20 | 1068 | 28 | 24 | 85.7143 | |
| anovak-vg | INDEL | D1_5 | map_l100_m1_e0 | homalt | 89.7866 | 85.3041 | 94.7664 | 81.8274 | 505 | 87 | 507 | 28 | 27 | 96.4286 | |
| anovak-vg | INDEL | I1_5 | func_cds | homalt | 87.3563 | 95.7983 | 80.2817 | 31.0680 | 114 | 5 | 114 | 28 | 26 | 92.8571 | |
| anovak-vg | SNP | * | map_l150_m0_e0 | homalt | 84.1702 | 73.1719 | 99.0595 | 77.5693 | 2992 | 1097 | 2949 | 28 | 25 | 89.2857 | |
| astatham-gatk | INDEL | * | segdup | het | 98.4019 | 98.7040 | 98.1017 | 95.1947 | 1447 | 19 | 1447 | 28 | 2 | 7.1429 | |
| bgallagher-sentieon | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7691 | 99.9184 | 99.6202 | 33.3544 | 7349 | 6 | 7345 | 28 | 3 | 10.7143 | |
| bgallagher-sentieon | SNP | tv | HG002compoundhet | * | 99.7142 | 99.7422 | 99.6862 | 48.7920 | 8900 | 23 | 8895 | 28 | 11 | 39.2857 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.1539 | 96.1783 | 98.1494 | 73.9632 | 1208 | 48 | 1485 | 28 | 21 | 75.0000 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 96.7778 | 99.6205 | 94.0928 | 82.7887 | 525 | 2 | 446 | 28 | 25 | 89.2857 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.1826 | 99.5074 | 94.9640 | 83.8841 | 606 | 3 | 528 | 28 | 21 | 75.0000 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m1_e0 | het | 96.0534 | 94.5409 | 97.6150 | 85.1242 | 1143 | 66 | 1146 | 28 | 4 | 14.2857 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m2_e0 | het | 96.0772 | 94.5064 | 97.7011 | 85.6419 | 1187 | 69 | 1190 | 28 | 4 | 14.2857 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m2_e1 | het | 95.9899 | 94.3218 | 97.7180 | 85.7871 | 1196 | 72 | 1199 | 28 | 4 | 14.2857 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.6772 | 96.0184 | 99.3942 | 25.6555 | 4582 | 190 | 4594 | 28 | 27 | 96.4286 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.2686 | 98.7673 | 95.8146 | 68.2034 | 641 | 8 | 641 | 28 | 28 | 100.0000 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.3915 | 95.8068 | 99.0295 | 51.2175 | 2856 | 125 | 2857 | 28 | 23 | 82.1429 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.6923 | 100.0000 | 91.7404 | 70.3412 | 311 | 0 | 311 | 28 | 27 | 96.4286 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3362 | 98.9137 | 99.7624 | 51.3621 | 11746 | 129 | 11756 | 28 | 14 | 50.0000 | |
| asubramanian-gatk | INDEL | D1_5 | map_l150_m0_e0 | het | 88.8889 | 91.0891 | 86.7925 | 93.8746 | 184 | 18 | 184 | 28 | 1 | 3.5714 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.7443 | 92.7854 | 98.8981 | 31.4540 | 2032 | 158 | 2513 | 28 | 26 | 92.8571 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.3297 | 98.9174 | 99.7455 | 57.3296 | 10964 | 120 | 10972 | 28 | 3 | 10.7143 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.7738 | 97.6852 | 97.8626 | 87.3723 | 1266 | 30 | 1282 | 28 | 7 | 25.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.2829 | 94.9045 | 97.7021 | 68.8472 | 894 | 48 | 1233 | 29 | 19 | 65.5172 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.3018 | 99.7594 | 98.8483 | 62.1581 | 2488 | 6 | 2489 | 29 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | ti | func_cds | * | 99.6805 | 99.5721 | 99.7892 | 27.6472 | 13728 | 59 | 13726 | 29 | 1 | 3.4483 | |
| asubramanian-gatk | SNP | ti | func_cds | het | 99.6530 | 99.6472 | 99.6589 | 31.5760 | 8474 | 30 | 8472 | 29 | 1 | 3.4483 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 10.6916 | 5.9524 | 52.4590 | 42.9907 | 10 | 158 | 32 | 29 | 10 | 34.4828 | |
| bgallagher-sentieon | INDEL | * | map_l125_m0_e0 | * | 97.5866 | 98.4127 | 96.7742 | 90.0652 | 868 | 14 | 870 | 29 | 6 | 20.6897 | |
| bgallagher-sentieon | INDEL | * | map_l150_m1_e0 | het | 97.5150 | 98.3626 | 96.6819 | 90.6743 | 841 | 14 | 845 | 29 | 4 | 13.7931 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.2896 | 93.1726 | 99.6223 | 27.3304 | 7615 | 558 | 7650 | 29 | 28 | 96.5517 | |