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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
52601-52650 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | I6_15 | map_l150_m2_e1 | * | 83.3333 | 74.0741 | 95.2381 | 96.6346 | 20 | 7 | 20 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_l150_m2_e1 | het | 82.7586 | 75.0000 | 92.3077 | 96.7089 | 12 | 4 | 12 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_l250_m0_e0 | * | 0.0000 | 0.0000 | 99.2806 | 0 | 1 | 0 | 1 | 1 | 100.0000 | ||
| asubramanian-gatk | INDEL | I6_15 | map_l250_m0_e0 | het | 0.0000 | 0.0000 | 98.9691 | 0 | 0 | 0 | 1 | 1 | 100.0000 | ||
| asubramanian-gatk | INDEL | I6_15 | map_l250_m1_e0 | * | 67.7966 | 57.1429 | 83.3333 | 98.1928 | 4 | 3 | 5 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_l250_m1_e0 | het | 77.4194 | 75.0000 | 80.0000 | 97.7376 | 3 | 1 | 4 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_l250_m2_e0 | * | 71.4286 | 62.5000 | 83.3333 | 98.3380 | 5 | 3 | 5 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_l250_m2_e0 | het | 80.0000 | 80.0000 | 80.0000 | 97.9424 | 4 | 1 | 4 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_l250_m2_e1 | * | 71.4286 | 62.5000 | 83.3333 | 98.4127 | 5 | 3 | 5 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_l250_m2_e1 | het | 80.0000 | 80.0000 | 80.0000 | 98.0315 | 4 | 1 | 4 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_siren | het | 91.3236 | 84.6154 | 99.1870 | 88.4507 | 121 | 22 | 122 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | * | func_cds | * | 99.6470 | 99.5537 | 99.7405 | 30.0602 | 18069 | 81 | 18066 | 47 | 1 | 2.1277 | |
| asubramanian-gatk | SNP | * | func_cds | het | 99.5968 | 99.6147 | 99.5789 | 34.4684 | 11118 | 43 | 11115 | 47 | 1 | 2.1277 | |
| asubramanian-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 98.2626 | 98.6842 | 97.8446 | 62.1511 | 1725 | 23 | 1725 | 38 | 1 | 2.6316 | |
| asubramanian-gatk | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 42.1053 | 92.3077 | 27.2727 | 80.4444 | 12 | 1 | 12 | 32 | 1 | 3.1250 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.8986 | 98.6225 | 99.1763 | 52.8592 | 2649 | 37 | 2649 | 22 | 1 | 4.5455 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.2824 | 98.8813 | 99.6867 | 44.4483 | 1591 | 18 | 1591 | 5 | 1 | 20.0000 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.2985 | 99.5634 | 99.0351 | 56.4261 | 6157 | 27 | 6158 | 60 | 1 | 1.6667 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.1387 | 99.5421 | 98.7386 | 58.2561 | 3913 | 18 | 3914 | 50 | 1 | 2.0000 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 92.9624 | 97.8970 | 88.5014 | 84.9075 | 931 | 20 | 939 | 122 | 1 | 0.8197 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 93.5466 | 97.8873 | 89.5745 | 84.0136 | 834 | 18 | 842 | 98 | 1 | 1.0204 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 97.5247 | 98.9580 | 96.1323 | 63.1557 | 3419 | 36 | 3430 | 138 | 1 | 0.7246 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 76.9231 | 100.0000 | 62.5000 | 69.2308 | 5 | 0 | 5 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.3592 | 99.0869 | 99.6329 | 31.6608 | 2713 | 25 | 2714 | 10 | 1 | 10.0000 | |
| asubramanian-gatk | SNP | * | map_l250_m0_e0 | * | 30.8789 | 18.2670 | 99.7442 | 99.0504 | 390 | 1745 | 390 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | * | map_l250_m0_e0 | het | 31.5260 | 18.7251 | 99.6466 | 99.1633 | 282 | 1224 | 282 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | * | map_l250_m1_e0 | * | 30.3884 | 17.9313 | 99.5388 | 98.3683 | 1295 | 5927 | 1295 | 6 | 1 | 16.6667 | |
| asubramanian-gatk | SNP | * | map_l250_m1_e0 | het | 32.3296 | 19.3060 | 99.3506 | 98.5655 | 918 | 3837 | 918 | 6 | 1 | 16.6667 | |
| asubramanian-gatk | SNP | * | map_l250_m2_e0 | * | 31.9242 | 19.0108 | 99.5352 | 98.3542 | 1499 | 6386 | 1499 | 7 | 1 | 14.2857 | |
| asubramanian-gatk | SNP | * | map_l250_m2_e0 | het | 33.8604 | 20.4082 | 99.3440 | 98.5469 | 1060 | 4134 | 1060 | 7 | 1 | 14.2857 | |
| asubramanian-gatk | SNP | * | map_l250_m2_e1 | * | 32.0765 | 19.1186 | 99.5437 | 98.3572 | 1527 | 6460 | 1527 | 7 | 1 | 14.2857 | |
| asubramanian-gatk | SNP | * | map_l250_m2_e1 | het | 34.0104 | 20.5167 | 99.3560 | 98.5506 | 1080 | 4184 | 1080 | 7 | 1 | 14.2857 | |
| asubramanian-gatk | SNP | ti | * | hetalt | 95.6522 | 94.5017 | 96.8310 | 46.4151 | 550 | 32 | 550 | 18 | 1 | 5.5556 | |
| asubramanian-gatk | SNP | ti | func_cds | * | 99.6805 | 99.5721 | 99.7892 | 27.6472 | 13728 | 59 | 13726 | 29 | 1 | 3.4483 | |
| asubramanian-gatk | SNP | ti | func_cds | het | 99.6530 | 99.6472 | 99.6589 | 31.5760 | 8474 | 30 | 8472 | 29 | 1 | 3.4483 | |
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.1770 | 98.4477 | 99.9171 | 58.7551 | 1205 | 19 | 1205 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 41.6667 | 83.3333 | 27.7778 | 84.0708 | 5 | 1 | 5 | 13 | 1 | 7.6923 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.4262 | 96.9096 | 99.9911 | 63.7599 | 11195 | 357 | 11199 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.0398 | 98.5800 | 99.5039 | 51.7553 | 1805 | 26 | 1805 | 9 | 1 | 11.1111 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.2864 | 98.6702 | 99.9102 | 42.2199 | 1113 | 15 | 1113 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5884 | 99.5263 | 99.6506 | 48.9164 | 3992 | 19 | 3993 | 14 | 1 | 7.1429 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.4893 | 99.5283 | 99.4503 | 51.6973 | 2532 | 12 | 2533 | 14 | 1 | 7.1429 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 96.0972 | 94.5701 | 97.6744 | 91.2209 | 209 | 12 | 210 | 5 | 1 | 20.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 95.9207 | 92.7632 | 99.3007 | 91.9255 | 141 | 11 | 142 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.4177 | 98.8829 | 99.9582 | 72.7717 | 2390 | 27 | 2394 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.4262 | 96.9096 | 99.9911 | 63.7599 | 11195 | 357 | 11199 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.3498 | 98.7237 | 99.9839 | 45.5999 | 6188 | 80 | 6193 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.2451 | 98.5461 | 99.9540 | 42.2689 | 2169 | 32 | 2172 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.8363 | 98.8582 | 98.8143 | 45.0033 | 6667 | 77 | 6667 | 80 | 1 | 1.2500 | |
| asubramanian-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 66.6667 | 100.0000 | 50.0000 | 83.3333 | 1 | 0 | 1 | 1 | 1 | 100.0000 | |