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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
59451-59500 / 86044 show all | |||||||||||||||
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.7418 | 99.9261 | 99.5582 | 73.6157 | 1352 | 1 | 1352 | 6 | 3 | 50.0000 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 75.7194 | 61.1022 | 99.5294 | 32.2169 | 765 | 487 | 846 | 4 | 3 | 75.0000 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 96.9072 | 100.0000 | 94.0000 | 50.9804 | 47 | 0 | 47 | 3 | 3 | 100.0000 | |
| jlack-gatk | INDEL | * | map_l150_m0_e0 | * | 91.3832 | 97.6654 | 85.8603 | 94.2048 | 502 | 12 | 504 | 83 | 3 | 3.6145 | |
| jlack-gatk | INDEL | * | map_l150_m1_e0 | homalt | 98.5915 | 98.4848 | 98.6985 | 88.1613 | 455 | 7 | 455 | 6 | 3 | 50.0000 | |
| jlack-gatk | INDEL | * | map_l150_m2_e0 | homalt | 98.6472 | 98.5447 | 98.7500 | 89.0884 | 474 | 7 | 474 | 6 | 3 | 50.0000 | |
| jlack-gatk | INDEL | * | map_l250_m1_e0 | homalt | 97.7376 | 99.0826 | 96.4286 | 94.6180 | 108 | 1 | 108 | 4 | 3 | 75.0000 | |
| jlack-gatk | INDEL | * | map_l250_m2_e0 | homalt | 97.8541 | 99.1304 | 96.6102 | 95.0956 | 114 | 1 | 114 | 4 | 3 | 75.0000 | |
| jlack-gatk | INDEL | * | map_l250_m2_e1 | homalt | 97.8723 | 99.1379 | 96.6387 | 95.1744 | 115 | 1 | 115 | 4 | 3 | 75.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.8912 | 97.3958 | 96.3918 | 85.9420 | 374 | 10 | 374 | 14 | 3 | 21.4286 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.3101 | 98.8739 | 97.7528 | 75.8415 | 439 | 5 | 435 | 10 | 3 | 30.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.7854 | 98.9858 | 98.5859 | 58.0864 | 488 | 5 | 488 | 7 | 3 | 42.8571 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.5212 | 99.2593 | 97.7941 | 64.3045 | 268 | 2 | 266 | 6 | 3 | 50.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.8030 | 98.2684 | 99.3435 | 58.5675 | 454 | 8 | 454 | 3 | 3 | 100.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 69.6774 | 79.4118 | 62.0690 | 95.4946 | 54 | 14 | 54 | 33 | 3 | 9.0909 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 61.2613 | 77.2727 | 50.7463 | 95.1868 | 34 | 10 | 34 | 33 | 3 | 9.0909 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 97.7060 | 96.3415 | 99.1098 | 37.3606 | 316 | 12 | 334 | 3 | 3 | 100.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 88.6364 | 84.7826 | 92.8571 | 65.5738 | 39 | 7 | 39 | 3 | 3 | 100.0000 | |
| jlack-gatk | INDEL | D16_PLUS | map_siren | * | 89.0690 | 91.6084 | 86.6667 | 94.5750 | 131 | 12 | 130 | 20 | 3 | 15.0000 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.4583 | 99.5662 | 99.3506 | 78.2639 | 918 | 4 | 918 | 6 | 3 | 50.0000 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9066 | 99.8428 | 99.9705 | 54.1001 | 10162 | 16 | 10162 | 3 | 3 | 100.0000 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.7481 | 97.7227 | 99.7952 | 31.6698 | 1459 | 34 | 1462 | 3 | 3 | 100.0000 | |
| jlack-gatk | INDEL | D1_5 | map_l125_m0_e0 | * | 92.0739 | 98.1855 | 86.6785 | 91.0422 | 487 | 9 | 488 | 75 | 3 | 4.0000 | |
| jlack-gatk | INDEL | D1_5 | segdup | het | 93.5227 | 98.8439 | 88.7451 | 96.2758 | 684 | 8 | 686 | 87 | 3 | 3.4483 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.4427 | 96.0630 | 96.8254 | 78.2007 | 122 | 5 | 122 | 4 | 3 | 75.0000 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3532 | 99.3035 | 99.4030 | 66.0014 | 998 | 7 | 999 | 6 | 3 | 50.0000 | |
| jlack-gatk | INDEL | D6_15 | map_l100_m1_e0 | * | 92.8030 | 94.9612 | 90.7407 | 88.2660 | 245 | 13 | 245 | 25 | 3 | 12.0000 | |
| jlack-gatk | INDEL | D6_15 | map_l100_m1_e0 | het | 89.7059 | 96.8254 | 83.5616 | 91.2365 | 122 | 4 | 122 | 24 | 3 | 12.5000 | |
| jlack-gatk | INDEL | D6_15 | map_l100_m2_e0 | * | 92.7644 | 94.6970 | 90.9091 | 88.8709 | 250 | 14 | 250 | 25 | 3 | 12.0000 | |
| jlack-gatk | INDEL | D6_15 | map_l100_m2_e0 | het | 89.6797 | 96.1832 | 84.0000 | 91.6574 | 126 | 5 | 126 | 24 | 3 | 12.5000 | |
| jlack-gatk | INDEL | D6_15 | map_l100_m2_e1 | het | 89.5833 | 95.5556 | 84.3137 | 91.6485 | 129 | 6 | 129 | 24 | 3 | 12.5000 | |
| jlack-gatk | INDEL | D6_15 | map_siren | het | 92.5170 | 97.1429 | 88.3117 | 88.1992 | 272 | 8 | 272 | 36 | 3 | 8.3333 | |
| jlack-gatk | INDEL | D6_15 | segdup | homalt | 97.0874 | 100.0000 | 94.3396 | 91.8462 | 50 | 0 | 50 | 3 | 3 | 100.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.6744 | 97.1098 | 98.2456 | 68.8808 | 336 | 10 | 336 | 6 | 3 | 50.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.5000 | 98.5000 | 98.5000 | 60.9375 | 197 | 3 | 197 | 3 | 3 | 100.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.6267 | 91.7101 | 99.8927 | 27.2780 | 3695 | 334 | 3723 | 4 | 3 | 75.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 95.6728 | 91.8003 | 99.8864 | 30.0913 | 3493 | 312 | 3518 | 4 | 3 | 75.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.2570 | 99.3617 | 99.1525 | 68.8860 | 467 | 3 | 468 | 4 | 3 | 75.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.0654 | 99.2509 | 98.8806 | 66.5000 | 265 | 2 | 265 | 3 | 3 | 100.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l100_m0_e0 | * | 95.9835 | 98.7109 | 93.4028 | 88.9103 | 536 | 7 | 538 | 38 | 3 | 7.8947 | |
| jlack-gatk | INDEL | I1_5 | map_l100_m1_e0 | het | 95.4470 | 98.0695 | 92.9612 | 88.8271 | 762 | 15 | 766 | 58 | 3 | 5.1724 | |
| jlack-gatk | INDEL | I1_5 | map_l100_m1_e0 | homalt | 99.2293 | 99.4208 | 99.0385 | 80.7763 | 515 | 3 | 515 | 5 | 3 | 60.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l100_m2_e0 | homalt | 99.1533 | 99.2467 | 99.0602 | 82.1116 | 527 | 4 | 527 | 5 | 3 | 60.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l100_m2_e1 | homalt | 99.1674 | 99.2593 | 99.0758 | 82.1511 | 536 | 4 | 536 | 5 | 3 | 60.0000 | |
| jlack-gatk | INDEL | I1_5 | map_l125_m2_e0 | het | 94.4890 | 97.9879 | 91.2313 | 91.8168 | 487 | 10 | 489 | 47 | 3 | 6.3830 | |
| jlack-gatk | INDEL | I1_5 | map_l125_m2_e1 | het | 94.5144 | 98.0315 | 91.2409 | 91.8416 | 498 | 10 | 500 | 48 | 3 | 6.2500 | |
| jlack-gatk | INDEL | I1_5 | segdup | * | 95.3193 | 98.8669 | 92.0175 | 95.4565 | 1047 | 12 | 1049 | 91 | 3 | 3.2967 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.5213 | 93.3654 | 99.8981 | 44.6324 | 2913 | 207 | 2942 | 3 | 3 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 96.0000 | 100.0000 | 92.3077 | 68.5484 | 36 | 0 | 36 | 3 | 3 | 100.0000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 95.4586 | 91.4533 | 99.8307 | 34.9752 | 2322 | 217 | 2359 | 4 | 3 | 75.0000 | |