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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
54001-54050 / 86044 show all | |||||||||||||||
| anovak-vg | INDEL | I6_15 | map_l250_m2_e1 | het | 40.0000 | 40.0000 | 40.0000 | 96.5517 | 2 | 3 | 2 | 3 | 1 | 33.3333 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_diTR_51to200 | het | 73.2984 | 70.0000 | 76.9231 | 96.4674 | 7 | 3 | 10 | 3 | 2 | 66.6667 | |
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_triTR_51to200 | * | 62.5000 | 62.5000 | 62.5000 | 94.8718 | 5 | 3 | 5 | 3 | 2 | 66.6667 | |
| anovak-vg | SNP | ti | tech_badpromoters | * | 89.2841 | 83.5294 | 95.8904 | 38.1356 | 71 | 14 | 70 | 3 | 3 | 100.0000 | |
| anovak-vg | SNP | tv | tech_badpromoters | * | 89.6729 | 84.7222 | 95.2381 | 42.7273 | 61 | 11 | 60 | 3 | 3 | 100.0000 | |
| anovak-vg | SNP | tv | tech_badpromoters | het | 85.7143 | 81.8182 | 90.0000 | 48.2759 | 27 | 6 | 27 | 3 | 3 | 100.0000 | |
| astatham-gatk | INDEL | * | func_cds | * | 99.5531 | 99.7753 | 99.3318 | 44.9080 | 444 | 1 | 446 | 3 | 1 | 33.3333 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8893 | 100.0000 | 99.7788 | 74.1369 | 1353 | 0 | 1353 | 3 | 1 | 33.3333 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.2046 | 97.0093 | 99.4297 | 73.5811 | 519 | 16 | 523 | 3 | 3 | 100.0000 | |
| astatham-gatk | INDEL | * | map_l250_m1_e0 | homalt | 97.7169 | 98.1651 | 97.2727 | 94.9192 | 107 | 2 | 107 | 3 | 2 | 66.6667 | |
| astatham-gatk | INDEL | * | map_l250_m2_e0 | homalt | 97.8355 | 98.2609 | 97.4138 | 95.3432 | 113 | 2 | 113 | 3 | 2 | 66.6667 | |
| astatham-gatk | INDEL | * | map_l250_m2_e1 | homalt | 97.8541 | 98.2759 | 97.4359 | 95.4333 | 114 | 2 | 114 | 3 | 2 | 66.6667 | |
| asubramanian-gatk | INDEL | D16_PLUS | map_l125_m2_e0 | * | 88.8889 | 88.8889 | 88.8889 | 97.7099 | 24 | 3 | 24 | 3 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | map_l125_m2_e0 | het | 87.8049 | 90.0000 | 85.7143 | 97.6325 | 18 | 2 | 18 | 3 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | map_l125_m2_e1 | * | 87.2727 | 85.7143 | 88.8889 | 97.7612 | 24 | 4 | 24 | 3 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | map_l125_m2_e1 | het | 87.8049 | 90.0000 | 85.7143 | 97.6796 | 18 | 2 | 18 | 3 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 97.9056 | 96.5937 | 99.2537 | 71.5700 | 397 | 14 | 399 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.7380 | 98.9848 | 98.4925 | 60.4374 | 195 | 2 | 196 | 3 | 2 | 66.6667 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m0_e0 | homalt | 95.1807 | 91.8605 | 98.7500 | 85.1943 | 237 | 21 | 237 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m1_e0 | homalt | 96.6121 | 93.9189 | 99.4643 | 83.9725 | 556 | 36 | 557 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m2_e0 | homalt | 96.7204 | 94.1080 | 99.4819 | 84.5641 | 575 | 36 | 576 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m2_e1 | homalt | 96.6837 | 94.0323 | 99.4889 | 84.6255 | 583 | 37 | 584 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.8254 | 96.0630 | 97.6000 | 79.5417 | 122 | 5 | 122 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.3025 | 98.9571 | 99.6503 | 63.7669 | 854 | 9 | 855 | 3 | 2 | 66.6667 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.3228 | 99.3228 | 99.3228 | 34.5643 | 440 | 3 | 440 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | D6_15 | map_l125_m1_e0 | * | 94.7368 | 92.3077 | 97.2973 | 92.3183 | 108 | 9 | 108 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | D6_15 | map_l125_m1_e0 | het | 94.4882 | 93.7500 | 95.2381 | 93.7808 | 60 | 4 | 60 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | D6_15 | map_l125_m2_e0 | * | 94.2623 | 91.2698 | 97.4576 | 92.5174 | 115 | 11 | 115 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | D6_15 | map_l125_m2_e0 | het | 94.2857 | 92.9577 | 95.6522 | 93.7838 | 66 | 5 | 66 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | D6_15 | map_l125_m2_e1 | * | 93.9271 | 90.6250 | 97.4790 | 92.6407 | 116 | 12 | 116 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | D6_15 | map_l125_m2_e1 | het | 94.2857 | 92.9577 | 95.6522 | 93.9314 | 66 | 5 | 66 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 94.1176 | 100.0000 | 88.8889 | 91.3462 | 24 | 0 | 24 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 90.8989 | 84.9624 | 97.7273 | 86.2069 | 113 | 20 | 129 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 91.2260 | 85.8491 | 97.3214 | 84.7411 | 91 | 15 | 109 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | map_l100_m2_e0 | * | 86.2745 | 84.6154 | 88.0000 | 96.2631 | 22 | 4 | 22 | 3 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | map_l100_m2_e1 | * | 86.2745 | 84.6154 | 88.0000 | 96.2798 | 22 | 4 | 22 | 3 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | map_siren | het | 89.3617 | 85.7143 | 93.3333 | 93.1921 | 42 | 7 | 42 | 3 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.5075 | 95.9538 | 99.1124 | 69.7674 | 332 | 14 | 335 | 3 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7495 | 99.7934 | 99.7056 | 64.6549 | 966 | 2 | 1016 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.5619 | 97.6596 | 99.4810 | 64.5181 | 459 | 11 | 575 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | map_siren | homalt | 97.1653 | 94.7195 | 99.7407 | 79.1155 | 1148 | 64 | 1154 | 3 | 2 | 66.6667 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 92.5816 | 87.6404 | 98.1132 | 73.8056 | 156 | 22 | 156 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 94.5946 | 97.2222 | 92.1053 | 70.3125 | 35 | 1 | 35 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 97.2687 | 95.4802 | 99.1254 | 71.1036 | 338 | 16 | 340 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 96.7391 | 96.7391 | 96.7391 | 70.4180 | 89 | 3 | 89 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 81.6845 | 71.0843 | 96.0000 | 30.5556 | 59 | 24 | 72 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 0.0000 | 0.0000 | 25.0000 | 78.9474 | 0 | 0 | 1 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.4507 | 98.1481 | 98.7552 | 66.1041 | 212 | 4 | 238 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 0.0000 | 0.0000 | 57.1429 | 83.3333 | 0 | 0 | 4 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_siren | homalt | 95.5056 | 94.4444 | 96.5909 | 86.3142 | 85 | 5 | 85 | 3 | 2 | 66.6667 | |