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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
85451-85500 / 86044 show all | |||||||||||||||
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.6471 | 99.4131 | 99.8821 | 84.7756 | 847 | 5 | 847 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.8081 | 99.6424 | 99.9744 | 76.1009 | 3901 | 14 | 3901 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.5328 | 99.1399 | 99.9287 | 67.1581 | 16829 | 146 | 16829 | 12 | 12 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.8406 | 99.7106 | 99.9710 | 62.7500 | 3445 | 10 | 3445 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7449 | 99.5401 | 99.9505 | 54.6217 | 6060 | 28 | 6060 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8292 | 99.6738 | 99.9851 | 35.1779 | 6723 | 22 | 6723 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.0289 | 93.0070 | 99.2537 | 92.6856 | 133 | 10 | 133 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 96.2963 | 95.1220 | 97.5000 | 92.3225 | 39 | 2 | 39 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7805 | 99.6348 | 99.9267 | 31.1475 | 2728 | 10 | 2728 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l100_m0_e0 | homalt | 76.4825 | 61.9363 | 99.9583 | 70.3301 | 7197 | 4423 | 7197 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l100_m1_e0 | hetalt | 80.0000 | 68.2927 | 96.5517 | 89.6797 | 28 | 13 | 28 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l100_m1_e0 | homalt | 83.8037 | 72.1438 | 99.9590 | 65.3578 | 19481 | 7522 | 19481 | 8 | 8 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l100_m2_e0 | hetalt | 80.5556 | 69.0476 | 96.6667 | 90.4762 | 29 | 13 | 29 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l100_m2_e1 | hetalt | 81.0811 | 69.7674 | 96.7742 | 90.1899 | 30 | 13 | 30 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l125_m0_e0 | homalt | 69.6311 | 53.4267 | 99.9443 | 78.9757 | 3586 | 3126 | 3586 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l125_m1_e0 | homalt | 76.7144 | 62.2360 | 99.9715 | 73.5225 | 10521 | 6384 | 10521 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l125_m2_e0 | homalt | 77.2870 | 62.9928 | 99.9726 | 75.5188 | 10945 | 6430 | 10945 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l125_m2_e1 | homalt | 77.4376 | 63.1930 | 99.9729 | 75.4660 | 11079 | 6453 | 11079 | 3 | 3 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l150_m0_e0 | homalt | 65.4719 | 48.6916 | 99.8996 | 84.7432 | 1991 | 2098 | 1991 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l150_m1_e0 | homalt | 71.8022 | 56.0188 | 99.9683 | 79.3360 | 6315 | 4958 | 6315 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l150_m2_e0 | homalt | 72.7253 | 57.1502 | 99.9701 | 80.8789 | 6686 | 5013 | 6686 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l150_m2_e1 | homalt | 72.8475 | 57.3011 | 99.9705 | 80.8330 | 6777 | 5050 | 6777 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l250_m0_e0 | homalt | 62.1444 | 45.1510 | 99.6491 | 95.8315 | 284 | 345 | 284 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l250_m1_e0 | homalt | 62.3079 | 45.2700 | 99.9104 | 92.6564 | 1115 | 1348 | 1115 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l250_m2_e0 | homalt | 63.6387 | 46.6865 | 99.9203 | 93.0743 | 1254 | 1432 | 1254 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_l250_m2_e1 | homalt | 63.8458 | 46.9095 | 99.9216 | 93.0622 | 1275 | 1443 | 1275 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | * | map_siren | homalt | 91.1261 | 83.7262 | 99.9610 | 54.5250 | 46180 | 8976 | 46171 | 18 | 18 | 100.0000 | |
| jmaeng-gatk | SNP | * | segdup | homalt | 99.4625 | 99.0412 | 99.8873 | 88.3992 | 10640 | 103 | 10640 | 12 | 12 | 100.0000 | |
| jmaeng-gatk | SNP | * | tech_badpromoters | * | 98.0769 | 97.4522 | 98.7097 | 47.6351 | 153 | 4 | 153 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | * | tech_badpromoters | homalt | 98.1366 | 98.7500 | 97.5309 | 47.0588 | 79 | 1 | 79 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | ti | * | hetalt | 98.5307 | 97.9381 | 99.1304 | 54.1467 | 570 | 12 | 570 | 5 | 5 | 100.0000 | |
| jmaeng-gatk | SNP | ti | HG002complexvar | hetalt | 97.2973 | 95.6522 | 99.0000 | 40.4762 | 198 | 9 | 198 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | ti | HG002compoundhet | homalt | 99.4701 | 99.0127 | 99.9317 | 30.6381 | 7321 | 73 | 7321 | 5 | 5 | 100.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8563 | 99.7624 | 99.9504 | 49.5168 | 10078 | 24 | 10078 | 5 | 5 | 100.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.5044 | 99.0738 | 99.9389 | 63.8841 | 11445 | 107 | 11445 | 7 | 7 | 100.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.5044 | 99.0738 | 99.9389 | 63.8841 | 11445 | 107 | 11445 | 7 | 7 | 100.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7953 | 99.6820 | 99.9089 | 42.1191 | 2194 | 7 | 2194 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.8493 | 99.7241 | 99.9749 | 34.2862 | 3976 | 11 | 3976 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7896 | 99.7197 | 99.8596 | 27.8116 | 1423 | 4 | 1423 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l100_m0_e0 | homalt | 77.0009 | 62.6190 | 99.9589 | 69.2803 | 4868 | 2906 | 4868 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l100_m1_e0 | hetalt | 82.3529 | 72.4138 | 95.4545 | 87.4286 | 21 | 8 | 21 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l100_m1_e0 | homalt | 84.6124 | 73.3575 | 99.9469 | 64.1277 | 13175 | 4785 | 13175 | 7 | 7 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l100_m2_e0 | hetalt | 83.0189 | 73.3333 | 95.6522 | 88.2653 | 22 | 8 | 22 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l100_m2_e1 | hetalt | 83.6364 | 74.1935 | 95.8333 | 87.8173 | 23 | 8 | 23 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l125_m0_e0 | homalt | 70.0419 | 53.9078 | 99.9587 | 78.1072 | 2421 | 2070 | 2421 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l125_m1_e0 | homalt | 77.2828 | 62.9878 | 99.9713 | 72.8260 | 6957 | 4088 | 6957 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l125_m2_e0 | homalt | 77.8495 | 63.7436 | 99.9724 | 74.8690 | 7240 | 4118 | 7240 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l125_m2_e1 | homalt | 78.0137 | 63.9640 | 99.9727 | 74.8162 | 7329 | 4129 | 7329 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l150_m0_e0 | homalt | 66.0199 | 49.2937 | 99.9266 | 83.9216 | 1361 | 1400 | 1361 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | SNP | ti | map_l150_m1_e0 | homalt | 72.2900 | 56.6125 | 99.9759 | 78.8887 | 4148 | 3179 | 4148 | 1 | 1 | 100.0000 | |