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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
27001-27050 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.8574 | 99.1901 | 98.5270 | 64.5573 | 8328 | 68 | 8294 | 124 | 111 | 89.5161 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.0455 | 94.6164 | 99.6025 | 28.0867 | 7733 | 440 | 7768 | 31 | 29 | 93.5484 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.8151 | 99.8240 | 97.8265 | 57.8124 | 5671 | 10 | 5671 | 126 | 125 | 99.2063 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.5384 | 98.0960 | 98.9848 | 61.0949 | 30810 | 598 | 30810 | 316 | 292 | 92.4051 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.0981 | 99.2004 | 98.9959 | 68.2271 | 13647 | 110 | 13606 | 138 | 117 | 84.7826 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 97.1571 | 94.8660 | 99.5615 | 32.7282 | 8814 | 477 | 8855 | 39 | 37 | 94.8718 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.1097 | 99.8684 | 98.3624 | 63.9223 | 8349 | 11 | 8349 | 139 | 138 | 99.2806 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.8065 | 98.5086 | 99.1063 | 41.3831 | 24174 | 366 | 24176 | 218 | 209 | 95.8716 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.2755 | 99.4715 | 99.0802 | 50.4204 | 10352 | 55 | 10341 | 96 | 89 | 92.7083 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.4972 | 95.5852 | 99.4871 | 26.0156 | 6582 | 304 | 6595 | 34 | 33 | 97.0588 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.3482 | 99.9034 | 98.7991 | 36.8548 | 7240 | 7 | 7240 | 88 | 87 | 98.8636 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 82.5440 | 77.0445 | 88.8889 | 53.2920 | 537 | 160 | 536 | 67 | 66 | 98.5075 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 83.0580 | 85.1852 | 81.0345 | 77.8626 | 115 | 20 | 94 | 22 | 21 | 95.4545 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 83.4621 | 71.8941 | 99.4667 | 29.5113 | 353 | 138 | 373 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 75.4098 | 97.1831 | 61.6071 | 52.3404 | 69 | 2 | 69 | 43 | 43 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8718 | 99.8265 | 99.9171 | 55.1617 | 25315 | 44 | 25318 | 21 | 16 | 76.1905 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.8747 | 99.8104 | 99.9390 | 55.0186 | 14742 | 28 | 14744 | 9 | 4 | 44.4444 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.1559 | 97.0803 | 99.2556 | 71.3982 | 399 | 12 | 400 | 3 | 3 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9362 | 99.9607 | 99.9116 | 54.3466 | 10174 | 4 | 10174 | 9 | 9 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 100.0000 | 100.0000 | 100.0000 | 99.9992 | 1 | 0 | 1 | 0 | 0 | ||
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_gt10 | hetalt | 100.0000 | 100.0000 | 100.0000 | 99.9921 | 1 | 0 | 1 | 0 | 0 | ||
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.7011 | 99.6968 | 99.7054 | 51.0387 | 11839 | 36 | 11844 | 35 | 16 | 45.7143 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.6877 | 99.7767 | 99.5988 | 53.6597 | 6701 | 15 | 6703 | 27 | 8 | 29.6296 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 99.1916 | 98.5934 | 99.7970 | 32.9401 | 1472 | 21 | 1475 | 3 | 3 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.9319 | 100.0000 | 99.8638 | 51.2807 | 3666 | 0 | 3666 | 5 | 5 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 98.0772 | 97.3214 | 98.8449 | 61.5726 | 1199 | 33 | 1198 | 14 | 12 | 85.7143 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.6284 | 97.4026 | 97.8552 | 79.4942 | 375 | 10 | 365 | 8 | 7 | 87.5000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.9009 | 96.6154 | 99.2212 | 23.1138 | 628 | 22 | 637 | 5 | 4 | 80.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 99.4924 | 99.4924 | 99.4924 | 60.6000 | 196 | 1 | 196 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_gt200 | * | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_gt200 | het | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_gt200 | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 0 | 0 | 0 | 0 | |||
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_gt200 | homalt | 0.0000 | 100.0000 | 0 | 0 | 0 | 0 | 0 | ||||
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.8773 | 99.8283 | 99.9264 | 44.0264 | 4070 | 7 | 4073 | 3 | 1 | 33.3333 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.8468 | 99.7812 | 99.9125 | 47.3260 | 2280 | 5 | 2283 | 2 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.6750 | 99.5671 | 99.7831 | 29.8326 | 460 | 2 | 460 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 100.0000 | 100.0000 | 100.0000 | 41.8452 | 1330 | 0 | 1330 | 0 | 0 | ||
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 95.3020 | 94.6667 | 95.9459 | 64.9289 | 71 | 4 | 71 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | het | 96.2963 | 100.0000 | 92.8571 | 87.5000 | 13 | 0 | 13 | 1 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 95.7447 | 91.8367 | 100.0000 | 28.5714 | 45 | 4 | 45 | 0 | 0 | ||
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 92.8571 | 100.0000 | 86.6667 | 58.3333 | 13 | 0 | 13 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m0_e0 | * | 98.1515 | 98.3778 | 97.9263 | 86.5655 | 849 | 14 | 850 | 18 | 4 | 22.2222 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m0_e0 | het | 97.9819 | 98.4772 | 97.4916 | 87.0169 | 582 | 9 | 583 | 15 | 2 | 13.3333 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m0_e0 | hetalt | 88.8889 | 85.7143 | 92.3077 | 93.6275 | 12 | 2 | 12 | 1 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m0_e0 | homalt | 99.0291 | 98.8372 | 99.2218 | 84.4337 | 255 | 3 | 255 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m1_e0 | * | 98.8105 | 98.8095 | 98.8115 | 84.8192 | 1826 | 22 | 1829 | 22 | 5 | 22.7273 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m1_e0 | het | 98.6818 | 98.9247 | 98.4401 | 85.0991 | 1196 | 13 | 1199 | 19 | 3 | 15.7895 | |
| dgrover-gatk | INDEL | D1_5 | map_l100_m1_e0 | hetalt | 94.5055 | 91.4894 | 97.7273 | 90.5579 | 43 | 4 | 43 | 1 | 0 | 0.0000 | |