PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
66551-66600 / 86044 show all | |||||||||||||||
| astatham-gatk | INDEL | D1_5 | map_l150_m1_e0 | * | 96.6476 | 96.3738 | 96.9231 | 89.6121 | 691 | 26 | 693 | 22 | 4 | 18.1818 | |
| astatham-gatk | INDEL | D1_5 | map_l150_m2_e0 | * | 96.6463 | 96.1992 | 97.0976 | 90.1019 | 734 | 29 | 736 | 22 | 4 | 18.1818 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1904 | 98.9484 | 99.4336 | 67.7810 | 3858 | 41 | 3862 | 22 | 16 | 72.7273 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.7024 | 99.7469 | 99.6579 | 53.4220 | 6699 | 17 | 6701 | 23 | 8 | 34.7826 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m0_e0 | * | 96.9783 | 96.6396 | 97.3193 | 86.2786 | 834 | 29 | 835 | 23 | 4 | 17.3913 | |
| astatham-gatk | INDEL | D1_5 | map_l125_m1_e0 | het | 95.9766 | 95.1791 | 96.7877 | 87.8644 | 691 | 35 | 693 | 23 | 3 | 13.0435 | |
| astatham-gatk | INDEL | D1_5 | map_l125_m2_e0 | het | 95.7656 | 94.6335 | 96.9251 | 88.4193 | 723 | 41 | 725 | 23 | 3 | 13.0435 | |
| astatham-gatk | INDEL | D1_5 | map_l125_m2_e1 | het | 95.7305 | 94.5455 | 96.9456 | 88.5091 | 728 | 42 | 730 | 23 | 3 | 13.0435 | |
| astatham-gatk | INDEL | D1_5 | map_l150_m2_e1 | * | 96.5155 | 96.0154 | 97.0207 | 90.1102 | 747 | 31 | 749 | 23 | 5 | 21.7391 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.9353 | 96.3590 | 99.5640 | 26.8986 | 5240 | 198 | 5252 | 23 | 22 | 95.6522 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.8693 | 98.6987 | 99.0405 | 76.6032 | 2427 | 32 | 2374 | 23 | 15 | 65.2174 | |
| astatham-gatk | SNP | * | HG002compoundhet | het | 98.6981 | 97.5878 | 99.8340 | 46.2177 | 13836 | 342 | 13834 | 23 | 22 | 95.6522 | |
| asubramanian-gatk | SNP | tv | HG002compoundhet | hetalt | 95.8824 | 94.5476 | 97.2554 | 25.0447 | 815 | 47 | 815 | 23 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | * | map_l125_m0_e0 | het | 97.0529 | 97.9557 | 96.1667 | 90.6074 | 575 | 12 | 577 | 23 | 2 | 8.6957 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.2794 | 95.8165 | 96.7468 | 75.0088 | 710 | 31 | 684 | 23 | 20 | 86.9565 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 94.2356 | 100.0000 | 89.0995 | 67.4383 | 188 | 0 | 188 | 23 | 22 | 95.6522 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.7497 | 99.8706 | 99.6290 | 54.7353 | 6176 | 8 | 6176 | 23 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6192 | 99.8219 | 99.4173 | 56.4253 | 3924 | 7 | 3924 | 23 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | * | map_l100_m1_e0 | homalt | 99.7886 | 99.6630 | 99.9146 | 57.7258 | 26912 | 91 | 26912 | 23 | 18 | 78.2609 | |
| bgallagher-sentieon | SNP | * | map_l100_m2_e0 | homalt | 99.7908 | 99.6657 | 99.9162 | 60.2352 | 27431 | 92 | 27431 | 23 | 18 | 78.2609 | |
| bgallagher-sentieon | SNP | * | map_l100_m2_e1 | homalt | 99.7911 | 99.6654 | 99.9170 | 60.2187 | 27703 | 93 | 27703 | 23 | 18 | 78.2609 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 92.6984 | 90.4665 | 95.0431 | 49.8920 | 446 | 47 | 441 | 23 | 12 | 52.1739 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 85.2814 | 84.5161 | 86.0606 | 80.3571 | 131 | 24 | 142 | 23 | 16 | 69.5652 | |
| anovak-vg | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 24.9332 | 16.1290 | 54.9020 | 84.7305 | 10 | 52 | 28 | 23 | 8 | 34.7826 | |
| anovak-vg | INDEL | I6_15 | map_l100_m1_e0 | homalt | 64.7111 | 78.7879 | 54.9020 | 77.9221 | 26 | 7 | 28 | 23 | 19 | 82.6087 | |
| anovak-vg | SNP | ti | map_l125_m0_e0 | homalt | 86.0648 | 75.9296 | 99.3223 | 69.5933 | 3410 | 1081 | 3371 | 23 | 21 | 91.3043 | |
| astatham-gatk | INDEL | * | map_l125_m0_e0 | het | 95.6440 | 95.2300 | 96.0616 | 91.1381 | 559 | 28 | 561 | 23 | 2 | 8.6957 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.2731 | 99.5818 | 98.9663 | 47.1998 | 2143 | 9 | 2202 | 23 | 5 | 21.7391 | |
| asubramanian-gatk | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 0.0000 | 0.0000 | 81.3008 | 0 | 0 | 0 | 23 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 0.0000 | 0.0000 | 86.9318 | 0 | 0 | 0 | 23 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 0.0000 | 100.0000 | 0.0000 | 58.1818 | 1 | 0 | 0 | 23 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | C6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 0.0000 | 0.0000 | 77.6699 | 0 | 0 | 0 | 23 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | D1_5 | map_l250_m1_e0 | * | 86.5497 | 86.5497 | 86.5497 | 96.4640 | 148 | 23 | 148 | 23 | 2 | 8.6957 | |
| asubramanian-gatk | INDEL | D1_5 | map_l250_m2_e0 | * | 86.8852 | 86.4130 | 87.3626 | 96.6544 | 159 | 25 | 159 | 23 | 2 | 8.6957 | |
| asubramanian-gatk | INDEL | D1_5 | map_l250_m2_e1 | * | 86.6485 | 85.9459 | 87.3626 | 96.7337 | 159 | 26 | 159 | 23 | 2 | 8.6957 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.0298 | 86.3583 | 98.4987 | 30.6787 | 1475 | 233 | 1509 | 23 | 22 | 95.6522 | |
| asubramanian-gatk | SNP | ti | HG002compoundhet | het | 98.1344 | 96.5702 | 99.7500 | 39.9164 | 9179 | 326 | 9177 | 23 | 14 | 60.8696 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.9777 | 98.0072 | 97.9483 | 86.5329 | 1082 | 22 | 1098 | 23 | 6 | 26.0870 | |
| gduggal-bwavard | INDEL | C16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 0.0000 | 0.0000 | 28.1250 | 94.2342 | 0 | 0 | 9 | 23 | 4 | 17.3913 | |
| gduggal-bwavard | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 0.0000 | 0.0000 | 50.0000 | 96.6811 | 0 | 0 | 23 | 23 | 11 | 47.8261 | |
| gduggal-bwavard | INDEL | C6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 0.0000 | 0.0000 | 54.0000 | 96.6148 | 0 | 0 | 27 | 23 | 9 | 39.1304 | |
| gduggal-bwavard | INDEL | D6_15 | map_l125_m1_e0 | * | 78.1730 | 76.9231 | 79.4643 | 92.1071 | 90 | 27 | 89 | 23 | 16 | 69.5652 | |
| gduggal-bwavard | INDEL | D6_15 | map_l125_m1_e0 | het | 84.2017 | 98.4375 | 73.5632 | 93.0732 | 63 | 1 | 64 | 23 | 16 | 69.5652 | |
| gduggal-bwavard | INDEL | D6_15 | map_l125_m2_e0 | * | 79.7632 | 78.5714 | 80.9917 | 92.2684 | 99 | 27 | 98 | 23 | 16 | 69.5652 | |
| gduggal-bwavard | INDEL | D6_15 | map_l125_m2_e0 | het | 85.5348 | 98.5915 | 75.5319 | 93.2325 | 70 | 1 | 71 | 23 | 16 | 69.5652 | |
| gduggal-bwavard | SNP | * | HG002compoundhet | homalt | 91.3621 | 84.3072 | 99.7055 | 35.4356 | 9090 | 1692 | 7788 | 23 | 19 | 82.6087 | |
| gduggal-bwavard | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.6054 | 97.3613 | 99.8818 | 50.3445 | 19666 | 533 | 19436 | 23 | 17 | 73.9130 | |
| gduggal-bwavard | SNP | * | map_l125_m1_e0 | homalt | 98.6701 | 97.5096 | 99.8585 | 66.2879 | 16484 | 421 | 16234 | 23 | 18 | 78.2609 | |
| gduggal-bwavard | SNP | * | map_l125_m2_e0 | homalt | 98.6652 | 97.4964 | 99.8623 | 68.6081 | 16940 | 435 | 16685 | 23 | 18 | 78.2609 | |
| gduggal-bwavard | SNP | * | map_l125_m2_e1 | homalt | 98.6568 | 97.4789 | 99.8635 | 68.6528 | 17090 | 442 | 16828 | 23 | 18 | 78.2609 | |