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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
47751-47800 / 86044 show all | |||||||||||||||
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 96.3870 | 99.3850 | 93.5645 | 65.8553 | 2424 | 15 | 2428 | 167 | 12 | 7.1856 | |
| cchapple-custom | SNP | tv | map_l125_m1_e0 | het | 95.5171 | 97.5509 | 93.5664 | 77.7177 | 9878 | 248 | 9904 | 681 | 116 | 17.0338 | |
| gduggal-snapplat | SNP | ti | map_l150_m2_e0 | het | 93.1053 | 92.6481 | 93.5671 | 87.2010 | 11934 | 947 | 11956 | 822 | 460 | 55.9611 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 23.9090 | 13.7056 | 93.5673 | 71.9672 | 162 | 1020 | 160 | 11 | 10 | 90.9091 | |
| qzeng-custom | INDEL | * | map_l100_m2_e1 | homalt | 85.5777 | 78.8447 | 93.5680 | 81.7812 | 1010 | 271 | 1382 | 95 | 15 | 15.7895 | |
| gduggal-bwafb | INDEL | D1_5 | HG002compoundhet | * | 91.0728 | 88.7045 | 93.5709 | 64.7882 | 10853 | 1382 | 11658 | 801 | 716 | 89.3883 | |
| hfeng-pmm3 | INDEL | D16_PLUS | map_siren | * | 92.9353 | 92.3077 | 93.5714 | 92.9895 | 132 | 11 | 131 | 9 | 1 | 11.1111 | |
| astatham-gatk | INDEL | D6_15 | map_l100_m2_e1 | het | 95.2727 | 97.0370 | 93.5714 | 90.2643 | 131 | 4 | 131 | 9 | 2 | 22.2222 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 93.9750 | 94.3820 | 93.5714 | 66.5072 | 84 | 5 | 131 | 9 | 2 | 22.2222 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 82.3899 | 73.5955 | 93.5714 | 59.8854 | 131 | 47 | 131 | 9 | 3 | 33.3333 | |
| mlin-fermikit | SNP | * | HG002compoundhet | * | 92.7673 | 91.9758 | 93.5725 | 42.5829 | 23750 | 2072 | 23759 | 1632 | 1332 | 81.6176 | |
| gduggal-bwafb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.5242 | 99.6649 | 93.5754 | 71.7749 | 2677 | 9 | 2680 | 184 | 9 | 4.8913 | |
| eyeh-varpipe | INDEL | * | map_l100_m2_e1 | homalt | 94.8575 | 96.1749 | 93.5757 | 84.5669 | 1232 | 49 | 1879 | 129 | 113 | 87.5969 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.0352 | 98.6256 | 93.5774 | 85.8273 | 1794 | 25 | 1559 | 107 | 85 | 79.4393 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.0352 | 98.6256 | 93.5774 | 85.8273 | 1794 | 25 | 1559 | 107 | 85 | 79.4393 | |
| gduggal-snapplat | SNP | tv | map_l125_m0_e0 | * | 89.9339 | 86.5631 | 93.5778 | 86.2991 | 5740 | 891 | 5741 | 394 | 208 | 52.7919 | |
| jmaeng-gatk | INDEL | I1_5 | map_l150_m0_e0 | het | 94.4228 | 95.2830 | 93.5780 | 96.1457 | 101 | 5 | 102 | 7 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | map_l150_m0_e0 | het | 94.4228 | 95.2830 | 93.5780 | 90.6598 | 101 | 5 | 102 | 7 | 0 | 0.0000 | |
| cchapple-custom | INDEL | I6_15 | map_l100_m2_e0 | * | 92.9049 | 92.2414 | 93.5780 | 88.1907 | 107 | 9 | 102 | 7 | 2 | 28.5714 | |
| ckim-vqsr | INDEL | I1_5 | map_l250_m1_e0 | * | 94.8837 | 96.2264 | 93.5780 | 97.2825 | 102 | 4 | 102 | 7 | 1 | 14.2857 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 92.9688 | 92.3674 | 93.5780 | 71.2618 | 714 | 59 | 714 | 49 | 29 | 59.1837 | |
| bgallagher-sentieon | INDEL | * | map_l250_m2_e0 | het | 95.3271 | 97.1429 | 93.5780 | 96.4748 | 204 | 6 | 204 | 14 | 2 | 14.2857 | |
| jlack-gatk | INDEL | D16_PLUS | HG002compoundhet | * | 92.8541 | 92.1401 | 93.5792 | 35.3980 | 2157 | 184 | 2157 | 148 | 143 | 96.6216 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6822 | 97.8799 | 93.5811 | 68.4771 | 277 | 6 | 277 | 19 | 19 | 100.0000 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 87.8316 | 82.7461 | 93.5831 | 40.4184 | 12095 | 2522 | 17909 | 1228 | 1155 | 94.0554 | |
| jli-custom | INDEL | I1_5 | HG002compoundhet | het | 95.4593 | 97.4118 | 93.5835 | 85.3129 | 828 | 22 | 773 | 53 | 44 | 83.0189 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 94.4196 | 95.2703 | 93.5841 | 72.6227 | 423 | 21 | 423 | 29 | 20 | 68.9655 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 92.3314 | 91.1111 | 93.5849 | 51.5539 | 246 | 24 | 248 | 17 | 12 | 70.5882 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 92.9382 | 92.2964 | 93.5890 | 71.7186 | 1258 | 105 | 1708 | 117 | 101 | 86.3248 | |
| qzeng-custom | INDEL | D1_5 | map_l250_m1_e0 | * | 80.9673 | 71.3450 | 93.5897 | 97.5788 | 122 | 49 | 146 | 10 | 9 | 90.0000 | |
| eyeh-varpipe | INDEL | D16_PLUS | HG002complexvar | hetalt | 28.7793 | 17.0040 | 93.5897 | 61.3861 | 42 | 205 | 219 | 15 | 15 | 100.0000 | |
| gduggal-snapfb | INDEL | I1_5 | map_l150_m2_e0 | het | 93.8813 | 94.1748 | 93.5897 | 89.6242 | 291 | 18 | 292 | 20 | 3 | 15.0000 | |
| jpowers-varprowl | INDEL | D6_15 | * | homalt | 74.3238 | 61.6345 | 93.5925 | 52.0152 | 3899 | 2427 | 3900 | 267 | 242 | 90.6367 | |
| cchapple-custom | INDEL | D1_5 | map_l125_m0_e0 | het | 95.4545 | 97.3913 | 93.5933 | 87.7139 | 336 | 9 | 336 | 23 | 2 | 8.6957 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 88.4335 | 83.8126 | 93.5937 | 65.9030 | 1807 | 349 | 1797 | 123 | 60 | 48.7805 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 96.2575 | 99.0755 | 93.5953 | 68.1797 | 643 | 6 | 643 | 44 | 44 | 100.0000 | |
| ckim-isaac | INDEL | D6_15 | HG002complexvar | hetalt | 82.1814 | 73.2478 | 93.5968 | 47.9210 | 742 | 271 | 1184 | 81 | 69 | 85.1852 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 96.6929 | 100.0000 | 93.5976 | 67.5248 | 311 | 0 | 307 | 21 | 20 | 95.2381 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 96.0876 | 98.7138 | 93.5976 | 68.7321 | 307 | 4 | 307 | 21 | 20 | 95.2381 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 92.9921 | 92.3939 | 93.5981 | 64.4892 | 1154 | 95 | 1155 | 79 | 58 | 73.4177 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 92.9921 | 92.3939 | 93.5981 | 64.4892 | 1154 | 95 | 1155 | 79 | 58 | 73.4177 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.2809 | 97.0252 | 93.5982 | 46.7059 | 424 | 13 | 424 | 29 | 29 | 100.0000 | |
| qzeng-custom | INDEL | * | map_l100_m2_e0 | homalt | 85.5333 | 78.7470 | 93.5994 | 81.7141 | 993 | 268 | 1360 | 93 | 14 | 15.0538 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.8621 | 98.2332 | 93.6027 | 69.8477 | 278 | 5 | 278 | 19 | 19 | 100.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.9210 | 92.2462 | 93.6058 | 72.7642 | 1963 | 165 | 1947 | 133 | 117 | 87.9699 | |
| bgallagher-sentieon | INDEL | * | map_l250_m2_e1 | het | 95.3488 | 97.1564 | 93.6073 | 96.5517 | 205 | 6 | 205 | 14 | 2 | 14.2857 | |
| gduggal-snapplat | SNP | ti | map_l150_m2_e1 | het | 93.1452 | 92.6854 | 93.6096 | 87.2522 | 12063 | 952 | 12085 | 825 | 463 | 56.1212 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 94.4612 | 95.3252 | 93.6128 | 55.7029 | 469 | 23 | 469 | 32 | 25 | 78.1250 | |
| gduggal-snapfb | INDEL | * | * | het | 92.8434 | 92.0858 | 93.6136 | 55.1298 | 178769 | 15364 | 200114 | 13652 | 5023 | 36.7931 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 41.7062 | 26.8293 | 93.6170 | 94.3914 | 44 | 120 | 44 | 3 | 3 | 100.0000 | |