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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
6001-6050 / 86044 show all | |||||||||||||||
| rpoplin-dv42 | SNP | ti | map_siren | * | 99.6562 | 99.5227 | 99.7902 | 53.3616 | 99876 | 479 | 99868 | 210 | 138 | 65.7143 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 92.2757 | 91.7744 | 92.7824 | 61.6372 | 1774 | 159 | 1774 | 138 | 138 | 100.0000 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 81.1064 | 76.2066 | 86.6795 | 41.5020 | 900 | 281 | 898 | 138 | 138 | 100.0000 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 55.8931 | 39.9329 | 93.1051 | 68.6867 | 1071 | 1611 | 1958 | 145 | 138 | 95.1724 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.1097 | 99.8684 | 98.3624 | 63.9223 | 8349 | 11 | 8349 | 139 | 138 | 99.2806 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.1097 | 99.8684 | 98.3624 | 63.9223 | 8349 | 11 | 8349 | 139 | 138 | 99.2806 | |
| jmaeng-gatk | INDEL | D6_15 | * | homalt | 98.8031 | 99.8261 | 97.8008 | 55.3272 | 6315 | 11 | 6315 | 142 | 138 | 97.1831 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.0566 | 99.8141 | 96.3599 | 59.7337 | 3759 | 7 | 3759 | 142 | 138 | 97.1831 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.0566 | 99.8141 | 96.3599 | 59.7337 | 3759 | 7 | 3759 | 142 | 138 | 97.1831 | |
| jpowers-varprowl | SNP | tv | map_l100_m1_e0 | * | 97.6764 | 97.6246 | 97.7283 | 72.0238 | 23919 | 582 | 23919 | 556 | 138 | 24.8201 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 76.2608 | 90.4082 | 65.9420 | 80.5543 | 443 | 47 | 273 | 141 | 138 | 97.8723 | |
| gduggal-bwaplat | INDEL | I6_15 | * | hetalt | 85.2525 | 75.5818 | 97.7610 | 47.7759 | 6463 | 2088 | 6462 | 148 | 138 | 93.2432 | |
| mlin-fermikit | INDEL | D1_5 | map_l100_m2_e1 | * | 77.5709 | 68.5921 | 89.2545 | 77.9440 | 1330 | 609 | 1329 | 160 | 138 | 86.2500 | |
| qzeng-custom | SNP | tv | map_l150_m0_e0 | het | 79.7044 | 70.2075 | 92.1723 | 93.6869 | 1996 | 847 | 1990 | 169 | 138 | 81.6568 | |
| mlin-fermikit | INDEL | * | map_l100_m0_e0 | * | 65.4035 | 54.7025 | 81.3093 | 79.7697 | 855 | 708 | 857 | 197 | 137 | 69.5431 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 93.2488 | 96.4929 | 90.2158 | 52.0822 | 3054 | 111 | 3052 | 331 | 137 | 41.3897 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 89.3091 | 91.3606 | 87.3477 | 63.4839 | 1766 | 167 | 1864 | 270 | 137 | 50.7407 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 73.3614 | 64.8603 | 84.4271 | 38.2979 | 766 | 415 | 759 | 140 | 137 | 97.8571 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.3072 | 99.0383 | 99.5775 | 51.0793 | 16271 | 158 | 35588 | 151 | 137 | 90.7285 | |
| ghariani-varprowl | SNP | * | map_l150_m0_e0 | * | 96.3674 | 97.6729 | 95.0963 | 84.3053 | 11752 | 280 | 11752 | 606 | 137 | 22.6073 | |
| ghariani-varprowl | SNP | tv | map_l100_m2_e0 | * | 97.8210 | 98.9893 | 96.6799 | 73.9056 | 24780 | 253 | 24781 | 851 | 137 | 16.0987 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 89.3062 | 89.0402 | 89.5738 | 76.8026 | 1373 | 169 | 1366 | 159 | 137 | 86.1635 | |
| gduggal-snapvard | INDEL | C6_15 | * | het | 48.6270 | 100.0000 | 32.1240 | 84.8018 | 7 | 0 | 425 | 898 | 137 | 15.2561 | |
| hfeng-pmm1 | INDEL | I1_5 | * | homalt | 99.7725 | 99.7799 | 99.7651 | 52.5960 | 60295 | 133 | 60299 | 142 | 137 | 96.4789 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 48.8339 | 78.4314 | 35.4545 | 62.0035 | 80 | 22 | 78 | 142 | 137 | 96.4789 | |
| ciseli-custom | INDEL | D1_5 | map_l100_m1_e0 | * | 79.6470 | 76.1905 | 83.4320 | 87.8636 | 1408 | 440 | 1410 | 280 | 137 | 48.9286 | |
| ckim-dragen | SNP | ti | map_siren | het | 98.6081 | 99.5319 | 97.7013 | 60.9808 | 62090 | 292 | 62097 | 1461 | 137 | 9.3771 | |
| gduggal-bwafb | SNP | * | HG002complexvar | homalt | 99.8832 | 99.8222 | 99.9441 | 19.8833 | 288062 | 513 | 288090 | 161 | 137 | 85.0932 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 85.3437 | 83.1499 | 87.6565 | 44.9532 | 982 | 199 | 980 | 138 | 137 | 99.2754 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 94.7579 | 92.9553 | 96.6318 | 48.7341 | 3246 | 246 | 4246 | 148 | 137 | 92.5676 | |
| jpowers-varprowl | SNP | ti | map_l100_m0_e0 | het | 96.5732 | 95.9308 | 97.2242 | 76.0435 | 13414 | 569 | 13415 | 383 | 137 | 35.7702 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 55.1985 | 59.1093 | 51.7730 | 72.4878 | 146 | 101 | 146 | 136 | 136 | 100.0000 | |
| jpowers-varprowl | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 94.1706 | 97.3744 | 91.1708 | 74.9459 | 4710 | 127 | 4750 | 460 | 136 | 29.5652 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 57.0116 | 54.1667 | 60.1719 | 83.5842 | 208 | 176 | 210 | 139 | 136 | 97.8417 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 65.1883 | 81.5920 | 54.2763 | 83.4962 | 164 | 37 | 165 | 139 | 136 | 97.8417 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 88.8814 | 87.5486 | 90.2554 | 74.8436 | 1350 | 192 | 1343 | 145 | 136 | 93.7931 | |
| ltrigg-rtg1 | SNP | * | HG002complexvar | * | 99.8490 | 99.7395 | 99.9587 | 18.9301 | 752419 | 1965 | 752595 | 311 | 136 | 43.7299 | |
| gduggal-snapplat | SNP | ti | map_l250_m2_e0 | * | 88.7392 | 83.8658 | 94.2139 | 93.6830 | 4200 | 808 | 4201 | 258 | 136 | 52.7132 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 38.3328 | 100.0000 | 23.7109 | 89.9572 | 1 | 0 | 584 | 1879 | 136 | 7.2379 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 38.3328 | 100.0000 | 23.7109 | 89.9572 | 1 | 0 | 584 | 1879 | 136 | 7.2379 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 69.3518 | 70.9929 | 67.7849 | 64.5633 | 1001 | 409 | 1576 | 749 | 136 | 18.1575 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 78.9525 | 73.1884 | 85.7021 | 53.5402 | 303 | 111 | 1001 | 167 | 136 | 81.4371 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 82.5923 | 77.5927 | 88.2806 | 60.8637 | 1025 | 296 | 1032 | 137 | 136 | 99.2701 | |
| mlin-fermikit | SNP | * | segdup | * | 98.0230 | 97.4311 | 98.6220 | 85.8156 | 27346 | 721 | 27340 | 382 | 136 | 35.6021 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 73.4719 | 85.9184 | 64.1753 | 76.0494 | 421 | 69 | 249 | 139 | 136 | 97.8417 | |
| mlin-fermikit | INDEL | D1_5 | map_l100_m1_e0 | * | 76.7469 | 67.5325 | 88.8730 | 76.4647 | 1248 | 600 | 1246 | 156 | 136 | 87.1795 | |
| mlin-fermikit | INDEL | D1_5 | map_l100_m2_e0 | * | 77.4662 | 68.4073 | 89.2906 | 77.7912 | 1310 | 605 | 1309 | 157 | 136 | 86.6242 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.3318 | 96.1892 | 92.5447 | 77.6767 | 2095 | 83 | 1862 | 150 | 136 | 90.6667 | |
| raldana-dualsentieon | INDEL | D1_5 | * | het | 99.5220 | 99.2680 | 99.7773 | 56.3227 | 86933 | 641 | 86937 | 194 | 136 | 70.1031 | |
| anovak-vg | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 32.8267 | 24.7508 | 48.7252 | 53.0585 | 149 | 453 | 172 | 181 | 136 | 75.1381 | |