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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
33901-33950 / 86044 show all | |||||||||||||||
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.5998 | 99.2908 | 99.9108 | 42.6598 | 1120 | 8 | 1120 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.6889 | 99.4208 | 99.9584 | 73.0221 | 2403 | 14 | 2403 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.8752 | 97.7839 | 99.9911 | 64.2557 | 11296 | 256 | 11296 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6545 | 99.3358 | 99.9752 | 49.3288 | 4038 | 27 | 4038 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3478 | 99.3571 | 99.3386 | 42.1628 | 10663 | 69 | 10663 | 71 | 1 | 1.4085 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2237 | 99.4958 | 98.9530 | 45.8387 | 6710 | 34 | 6710 | 71 | 1 | 1.4085 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.5138 | 99.1122 | 99.9186 | 36.8380 | 2456 | 22 | 2455 | 2 | 1 | 50.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.3658 | 98.8087 | 99.9291 | 26.8533 | 1410 | 17 | 1410 | 1 | 1 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_l100_m0_e0 | * | 70.6665 | 54.9125 | 99.0964 | 86.5903 | 11955 | 9816 | 11954 | 109 | 1 | 0.9174 | |
| ckim-vqsr | SNP | ti | map_l100_m0_e0 | het | 80.8690 | 68.4116 | 98.8733 | 87.2610 | 9566 | 4417 | 9565 | 109 | 1 | 0.9174 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 80.9524 | 70.8333 | 94.4444 | 73.9130 | 17 | 7 | 17 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 63.0114 | 46.2366 | 98.8889 | 64.0000 | 86 | 100 | 89 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 70.8861 | 57.1429 | 93.3333 | 87.7049 | 20 | 15 | 14 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 88.8394 | 80.5907 | 98.9691 | 22.4000 | 191 | 46 | 192 | 2 | 1 | 50.0000 | |
| ckim-isaac | INDEL | I6_15 | map_l100_m1_e0 | * | 55.3459 | 38.5965 | 97.7778 | 90.5462 | 44 | 70 | 44 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_l100_m1_e0 | het | 57.1133 | 40.6780 | 95.8333 | 92.5697 | 24 | 35 | 23 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_l100_m2_e0 | * | 56.4417 | 39.6552 | 97.8723 | 91.1488 | 46 | 70 | 46 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_l100_m2_e0 | het | 59.0641 | 42.6230 | 96.1538 | 92.8177 | 26 | 35 | 25 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_l100_m2_e1 | * | 56.4417 | 39.6552 | 97.8723 | 91.2639 | 46 | 70 | 46 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_l100_m2_e1 | het | 59.0641 | 42.6230 | 96.1538 | 92.8767 | 26 | 35 | 25 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_siren | het | 65.4206 | 48.9510 | 98.5915 | 87.8425 | 70 | 73 | 70 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | map_siren | homalt | 55.5556 | 38.8889 | 97.2222 | 80.4348 | 35 | 55 | 35 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 96.7618 | 93.7850 | 99.9338 | 39.2110 | 1509 | 100 | 1509 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 96.8657 | 94.0053 | 99.9057 | 45.5875 | 2117 | 135 | 2119 | 2 | 1 | 50.0000 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 97.2553 | 94.7939 | 99.8479 | 50.8778 | 1311 | 72 | 1313 | 2 | 1 | 50.0000 | |
| ckim-isaac | SNP | * | map_l250_m0_e0 | het | 68.2076 | 51.9256 | 99.3647 | 94.7881 | 782 | 724 | 782 | 5 | 1 | 20.0000 | |
| ckim-isaac | SNP | * | map_l250_m0_e0 | homalt | 60.9272 | 43.8792 | 99.6390 | 88.3516 | 276 | 353 | 276 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | * | map_l250_m1_e0 | het | 66.7411 | 50.2629 | 99.2937 | 91.8401 | 2390 | 2365 | 2390 | 17 | 1 | 5.8824 | |
| ckim-isaac | SNP | * | segdup | het | 98.3305 | 96.7604 | 99.9523 | 88.4697 | 16756 | 561 | 16758 | 8 | 1 | 12.5000 | |
| ckim-isaac | SNP | * | segdup | homalt | 98.1370 | 96.3511 | 99.9903 | 85.3967 | 10351 | 392 | 10351 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.7398 | 94.7570 | 98.8075 | 51.0833 | 1735 | 96 | 1740 | 21 | 1 | 4.7619 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 96.5644 | 93.4397 | 99.9052 | 38.7696 | 1054 | 74 | 1054 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 96.9804 | 94.2019 | 99.9277 | 38.3793 | 1381 | 85 | 1383 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 97.5553 | 95.3380 | 99.8782 | 41.5658 | 818 | 40 | 820 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.3145 | 96.7288 | 99.9531 | 38.9223 | 2129 | 72 | 2130 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | ti | map_l150_m0_e0 | het | 74.1407 | 59.0347 | 99.6358 | 83.5333 | 3009 | 2088 | 3009 | 11 | 1 | 9.0909 | |
| ckim-isaac | SNP | ti | map_l250_m0_e0 | * | 68.2974 | 51.9708 | 99.5804 | 93.7826 | 712 | 658 | 712 | 3 | 1 | 33.3333 | |
| ckim-isaac | SNP | ti | map_l250_m0_e0 | homalt | 62.5786 | 45.6422 | 99.5000 | 87.4451 | 199 | 237 | 199 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | ti | map_l250_m2_e0 | het | 69.1244 | 53.0117 | 99.3092 | 92.1654 | 1725 | 1529 | 1725 | 12 | 1 | 8.3333 | |
| ckim-isaac | SNP | ti | map_l250_m2_e1 | het | 69.1304 | 53.0161 | 99.3186 | 92.2279 | 1749 | 1550 | 1749 | 12 | 1 | 8.3333 | |
| ckim-isaac | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.9529 | 91.4315 | 96.6173 | 65.9835 | 907 | 85 | 914 | 32 | 1 | 3.1250 | |
| ckim-isaac | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.5585 | 93.7023 | 99.5943 | 53.9683 | 491 | 33 | 491 | 2 | 1 | 50.0000 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.9558 | 94.9708 | 99.0256 | 50.8383 | 812 | 43 | 813 | 8 | 1 | 12.5000 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 96.7794 | 94.2322 | 99.4681 | 58.4858 | 1307 | 80 | 1309 | 7 | 1 | 14.2857 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 88.3117 | 82.9268 | 94.4444 | 87.1429 | 34 | 7 | 34 | 2 | 1 | 50.0000 | |
| ckim-isaac | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 94.3567 | 89.4171 | 99.8741 | 46.5320 | 1580 | 187 | 1586 | 2 | 1 | 50.0000 | |
| ckim-isaac | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.1064 | 96.3243 | 99.9558 | 58.4821 | 6761 | 258 | 6786 | 3 | 1 | 33.3333 | |
| ckim-isaac | SNP | tv | map_l125_m0_e0 | * | 67.9069 | 51.4704 | 99.7662 | 76.9939 | 3413 | 3218 | 3413 | 8 | 1 | 12.5000 | |
| ckim-isaac | SNP | tv | map_l125_m0_e0 | het | 71.3076 | 55.5101 | 99.6736 | 79.7505 | 2443 | 1958 | 2443 | 8 | 1 | 12.5000 | |
| ckim-isaac | SNP | tv | map_l150_m0_e0 | * | 66.0468 | 49.3531 | 99.8062 | 82.1762 | 2060 | 2114 | 2060 | 4 | 1 | 25.0000 | |