PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
30851-30900 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 92.9293 | 86.7925 | 100.0000 | 60.7477 | 46 | 7 | 42 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.9293 | 89.3204 | 96.8421 | 87.2226 | 184 | 22 | 184 | 6 | 2 | 33.3333 | |
| jlack-gatk | INDEL | D1_5 | map_l150_m2_e1 | * | 92.9289 | 98.5861 | 87.8857 | 91.6492 | 767 | 11 | 769 | 106 | 5 | 4.7170 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.9273 | 88.2463 | 98.1328 | 62.8086 | 473 | 63 | 473 | 9 | 8 | 88.8889 | |
| eyeh-varpipe | INDEL | D6_15 | map_l125_m2_e0 | het | 92.9271 | 95.7746 | 90.2439 | 86.6667 | 68 | 3 | 74 | 8 | 8 | 100.0000 | |
| eyeh-varpipe | INDEL | D6_15 | map_l125_m2_e1 | het | 92.9271 | 95.7746 | 90.2439 | 86.9634 | 68 | 3 | 74 | 8 | 8 | 100.0000 | |
| gduggal-bwavard | INDEL | I1_5 | map_l100_m0_e0 | het | 92.9247 | 96.9325 | 89.2351 | 90.6242 | 316 | 10 | 315 | 38 | 12 | 31.5789 | |
| gduggal-snapfb | INDEL | I1_5 | map_l100_m0_e0 | het | 92.9242 | 94.4785 | 91.4201 | 83.9430 | 308 | 18 | 309 | 29 | 4 | 13.7931 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.9241 | 87.1570 | 99.5086 | 30.3082 | 1588 | 234 | 1620 | 8 | 8 | 100.0000 | |
| qzeng-custom | INDEL | D1_5 | HG002compoundhet | het | 92.9212 | 93.9236 | 91.9400 | 64.3165 | 1623 | 105 | 11042 | 968 | 705 | 72.8306 | |
| gduggal-snapvard | SNP | ti | map_l100_m0_e0 | * | 92.9211 | 95.6915 | 90.3065 | 76.7821 | 20833 | 938 | 20654 | 2217 | 198 | 8.9310 | |
| 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 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.9204 | 86.8267 | 99.9340 | 30.1521 | 1483 | 225 | 1514 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.9204 | 87.9187 | 98.5255 | 66.5471 | 735 | 101 | 735 | 11 | 9 | 81.8182 | |
| ckim-dragen | INDEL | I1_5 | map_l250_m2_e0 | * | 92.9204 | 92.9204 | 92.9204 | 96.3759 | 105 | 8 | 105 | 8 | 3 | 37.5000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 92.9183 | 99.1694 | 87.4085 | 51.4225 | 597 | 5 | 597 | 86 | 85 | 98.8372 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 92.9151 | 90.2558 | 95.7358 | 51.6673 | 2399 | 259 | 29209 | 1301 | 1194 | 91.7756 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.9148 | 91.0141 | 94.8966 | 61.7747 | 3626 | 358 | 3626 | 195 | 169 | 86.6667 | |
| ltrigg-rtg2 | SNP | ti | map_l250_m0_e0 | het | 92.9143 | 87.0450 | 99.6324 | 79.6863 | 813 | 121 | 813 | 3 | 0 | 0.0000 | |
| jlack-gatk | SNP | ti | map_l150_m0_e0 | het | 92.9137 | 98.4304 | 87.9825 | 88.8885 | 5017 | 80 | 5015 | 685 | 60 | 8.7591 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 92.9134 | 100.0000 | 86.7647 | 77.2575 | 59 | 0 | 59 | 9 | 9 | 100.0000 | |
| jpowers-varprowl | INDEL | * | map_l125_m2_e0 | het | 92.9134 | 93.3142 | 92.5160 | 89.8956 | 1298 | 93 | 1298 | 105 | 74 | 70.4762 | |
| jpowers-varprowl | INDEL | * | map_l150_m0_e0 | * | 92.9134 | 91.8288 | 94.0239 | 93.2052 | 472 | 42 | 472 | 30 | 20 | 66.6667 | |
| rpoplin-dv42 | INDEL | D6_15 | map_l100_m1_e0 | hetalt | 92.9134 | 86.7647 | 100.0000 | 72.5581 | 59 | 9 | 59 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | D6_15 | map_l100_m2_e0 | hetalt | 92.9134 | 86.7647 | 100.0000 | 73.6607 | 59 | 9 | 59 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 92.9134 | 96.7213 | 89.3939 | 84.5794 | 59 | 2 | 59 | 7 | 6 | 85.7143 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 92.9134 | 100.0000 | 86.7647 | 76.7123 | 59 | 0 | 59 | 9 | 9 | 100.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 92.9134 | 86.7647 | 100.0000 | 97.2936 | 59 | 9 | 59 | 0 | 0 | ||
| ckim-dragen | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 92.9134 | 100.0000 | 86.7647 | 77.6316 | 59 | 0 | 59 | 9 | 9 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | map_l100_m0_e0 | het | 92.9134 | 98.3333 | 88.0597 | 92.8875 | 59 | 1 | 59 | 8 | 1 | 12.5000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 92.9134 | 100.0000 | 86.7647 | 76.7123 | 59 | 0 | 59 | 9 | 9 | 100.0000 | |
| gduggal-snapplat | SNP | ti | map_l150_m1_e0 | * | 92.9132 | 90.4018 | 95.5681 | 83.3799 | 17820 | 1892 | 17833 | 827 | 469 | 56.7110 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 92.9113 | 89.3360 | 96.7846 | 77.0025 | 6149 | 734 | 6291 | 209 | 19 | 9.0909 | |
| gduggal-snapplat | SNP | * | map_l150_m2_e1 | homalt | 92.9111 | 86.8268 | 99.9123 | 74.6875 | 10269 | 1558 | 10259 | 9 | 9 | 100.0000 | |
| ckim-gatk | SNP | ti | map_l100_m2_e1 | het | 92.9104 | 88.4076 | 97.8964 | 81.4552 | 27371 | 3589 | 27364 | 588 | 62 | 10.5442 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.9104 | 91.7791 | 94.0700 | 54.4828 | 3606 | 323 | 3601 | 227 | 215 | 94.7137 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.9102 | 91.2700 | 94.6103 | 54.6326 | 3586 | 343 | 3581 | 204 | 197 | 96.5686 | |
| cchapple-custom | INDEL | I6_15 | map_l100_m2_e0 | * | 92.9049 | 92.2414 | 93.5780 | 88.1907 | 107 | 9 | 102 | 7 | 2 | 28.5714 | |
| jpowers-varprowl | INDEL | I1_5 | map_siren | * | 92.9039 | 91.0815 | 94.8007 | 80.0152 | 2737 | 268 | 2735 | 150 | 120 | 80.0000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 92.9012 | 86.9942 | 99.6689 | 73.6704 | 301 | 45 | 301 | 1 | 1 | 100.0000 | |
| astatham-gatk | SNP | ti | map_l250_m1_e0 | * | 92.9011 | 87.3116 | 99.2552 | 90.3133 | 3998 | 581 | 3998 | 30 | 12 | 40.0000 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 92.9010 | 92.8196 | 92.9825 | 55.8140 | 530 | 41 | 530 | 40 | 38 | 95.0000 | |
| gduggal-bwavard | INDEL | I1_5 | segdup | het | 92.9009 | 96.6543 | 89.4281 | 96.3152 | 520 | 18 | 516 | 61 | 52 | 85.2459 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 92.9005 | 92.0300 | 93.7875 | 53.5986 | 18279 | 1583 | 18267 | 1210 | 1145 | 94.6281 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 92.9003 | 95.1929 | 90.7155 | 79.9240 | 16159 | 816 | 16190 | 1657 | 193 | 11.6476 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 92.9003 | 95.1929 | 90.7155 | 79.9240 | 16159 | 816 | 16190 | 1657 | 193 | 11.6476 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m1_e0 | * | 92.8980 | 89.5022 | 96.5618 | 87.1490 | 1654 | 194 | 1657 | 59 | 7 | 11.8644 | |
| ciseli-custom | SNP | tv | func_cds | het | 92.8964 | 99.2473 | 87.3095 | 32.0576 | 2637 | 20 | 2635 | 383 | 2 | 0.5222 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 92.8940 | 87.0028 | 99.6409 | 34.1996 | 2209 | 330 | 2220 | 8 | 8 | 100.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 92.8925 | 86.9894 | 99.6550 | 36.0629 | 2300 | 344 | 2311 | 8 | 8 | 100.0000 | |