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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13451-13500 / 86044 show all | |||||||||||||||
| ghariani-varprowl | INDEL | I1_5 | HG002compoundhet | homalt | 36.8099 | 93.9210 | 22.8907 | 61.1792 | 309 | 20 | 312 | 1051 | 920 | 87.5357 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.4936 | 95.9940 | 99.0408 | 57.8182 | 41599 | 1736 | 41405 | 401 | 351 | 87.5312 | |
| hfeng-pmm2 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 95.8396 | 93.5417 | 98.2533 | 81.8470 | 449 | 31 | 450 | 8 | 7 | 87.5000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.0941 | 94.7894 | 99.5137 | 51.5749 | 6549 | 360 | 6548 | 32 | 28 | 87.5000 | |
| jlack-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.8960 | 99.8713 | 99.9208 | 48.6105 | 10089 | 13 | 10089 | 8 | 7 | 87.5000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.7064 | 94.2259 | 99.3209 | 30.4194 | 1126 | 69 | 1170 | 8 | 7 | 87.5000 | |
| hfeng-pmm3 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.0614 | 93.9583 | 98.2609 | 81.1243 | 451 | 29 | 452 | 8 | 7 | 87.5000 | |
| jlack-gatk | INDEL | I16_PLUS | * | hetalt | 92.9357 | 87.1306 | 99.5697 | 57.5280 | 1828 | 270 | 1851 | 8 | 7 | 87.5000 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 89.8876 | 97.5610 | 83.3333 | 88.5167 | 40 | 1 | 40 | 8 | 7 | 87.5000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.1311 | 92.6743 | 99.8558 | 64.0650 | 5503 | 435 | 5540 | 8 | 7 | 87.5000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.0943 | 98.9524 | 99.2366 | 62.3968 | 1039 | 11 | 1040 | 8 | 7 | 87.5000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 90.5181 | 86.3806 | 95.0719 | 63.1897 | 463 | 73 | 463 | 24 | 21 | 87.5000 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.7191 | 97.1983 | 98.2456 | 71.4465 | 451 | 13 | 448 | 8 | 7 | 87.5000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.9418 | 94.1095 | 99.9498 | 41.0630 | 15721 | 984 | 15938 | 8 | 7 | 87.5000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.9418 | 94.1095 | 99.9498 | 41.0630 | 15721 | 984 | 15938 | 8 | 7 | 87.5000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.3740 | 98.3740 | 98.3740 | 59.0341 | 484 | 8 | 484 | 8 | 7 | 87.5000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 95.7529 | 97.6378 | 93.9394 | 49.0347 | 124 | 3 | 124 | 8 | 7 | 87.5000 | |
| hfeng-pmm3 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9257 | 99.8911 | 99.9604 | 56.1148 | 20177 | 22 | 20177 | 8 | 7 | 87.5000 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.3231 | 97.9202 | 94.7773 | 65.7410 | 14313 | 304 | 13937 | 768 | 672 | 87.5000 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8937 | 99.8584 | 99.9291 | 56.1359 | 11280 | 16 | 11280 | 8 | 7 | 87.5000 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.7214 | 99.8141 | 99.6289 | 46.6996 | 2148 | 4 | 2148 | 8 | 7 | 87.5000 | |
| ghariani-varprowl | INDEL | D6_15 | map_l100_m0_e0 | * | 74.8768 | 73.7864 | 76.0000 | 91.3420 | 76 | 27 | 76 | 24 | 21 | 87.5000 | |
| ghariani-varprowl | INDEL | D6_15 | map_l100_m0_e0 | het | 82.5175 | 98.3333 | 71.0843 | 91.9024 | 59 | 1 | 59 | 24 | 21 | 87.5000 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 82.0780 | 79.3651 | 84.9829 | 70.4935 | 500 | 130 | 498 | 88 | 77 | 87.5000 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 43.5045 | 31.1688 | 72.0000 | 59.1837 | 144 | 318 | 144 | 56 | 49 | 87.5000 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 4.7019 | 2.5478 | 30.4348 | 66.6667 | 4 | 153 | 7 | 16 | 14 | 87.5000 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | het | 5.9197 | 3.2787 | 30.4348 | 64.6154 | 2 | 59 | 7 | 16 | 14 | 87.5000 | |
| gduggal-snapvard | INDEL | D6_15 | func_cds | * | 67.7933 | 60.4651 | 77.1429 | 50.7042 | 26 | 17 | 27 | 8 | 7 | 87.5000 | |
| gduggal-snapvard | INDEL | D6_15 | func_cds | het | 79.1035 | 82.7586 | 75.7576 | 50.7463 | 24 | 5 | 25 | 8 | 7 | 87.5000 | |
| gduggal-snapvard | INDEL | I16_PLUS | segdup | * | 7.7994 | 4.2553 | 46.6667 | 93.6170 | 2 | 45 | 7 | 8 | 7 | 87.5000 | |
| gduggal-snapvard | INDEL | I16_PLUS | segdup | het | 14.1414 | 8.3333 | 46.6667 | 93.3628 | 2 | 22 | 7 | 8 | 7 | 87.5000 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 23.5294 | 13.9276 | 75.7576 | 73.7052 | 50 | 309 | 50 | 16 | 14 | 87.5000 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 42.0587 | 30.6709 | 66.8966 | 62.3377 | 96 | 217 | 97 | 48 | 42 | 87.5000 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 75.3108 | 61.8076 | 96.3636 | 56.5217 | 212 | 131 | 212 | 8 | 7 | 87.5000 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 92.6603 | 88.6076 | 97.1014 | 74.9319 | 280 | 36 | 268 | 8 | 7 | 87.5000 | |
| ltrigg-rtg2 | INDEL | I6_15 | * | homalt | 98.7906 | 98.4933 | 99.0897 | 41.6927 | 6145 | 94 | 6096 | 56 | 49 | 87.5000 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.0398 | 97.0909 | 99.0074 | 61.6738 | 801 | 24 | 798 | 8 | 7 | 87.5000 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.0398 | 97.0909 | 99.0074 | 61.6738 | 801 | 24 | 798 | 8 | 7 | 87.5000 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 98.4334 | 97.3461 | 99.5452 | 51.1660 | 1724 | 47 | 1751 | 8 | 7 | 87.5000 | |
| ltrigg-rtg2 | SNP | * | map_l100_m1_e0 | homalt | 99.8127 | 99.6852 | 99.9406 | 57.7080 | 26918 | 85 | 26916 | 16 | 14 | 87.5000 | |
| ltrigg-rtg2 | SNP | * | map_l150_m1_e0 | homalt | 99.7245 | 99.5210 | 99.9288 | 67.8086 | 11219 | 54 | 11221 | 8 | 7 | 87.5000 | |
| ltrigg-rtg2 | SNP | * | map_l150_m2_e0 | homalt | 99.7345 | 99.5384 | 99.9314 | 70.4233 | 11645 | 54 | 11647 | 8 | 7 | 87.5000 | |
| ltrigg-rtg2 | SNP | * | map_l150_m2_e1 | homalt | 99.7374 | 99.5434 | 99.9321 | 70.4609 | 11773 | 54 | 11779 | 8 | 7 | 87.5000 | |
| mlin-fermikit | INDEL | * | map_l250_m0_e0 | homalt | 50.0000 | 44.0000 | 57.8947 | 94.7368 | 11 | 14 | 11 | 8 | 7 | 87.5000 | |
| mlin-fermikit | INDEL | D1_5 | map_l125_m2_e1 | * | 70.7275 | 59.6370 | 86.8852 | 80.8130 | 690 | 467 | 689 | 104 | 91 | 87.5000 | |
| mlin-fermikit | INDEL | D1_5 | map_l250_m1_e0 | * | 54.4256 | 40.9357 | 81.1765 | 90.6181 | 70 | 101 | 69 | 16 | 14 | 87.5000 | |
| mlin-fermikit | INDEL | D1_5 | map_l250_m2_e0 | * | 56.5892 | 42.9348 | 82.9787 | 91.5996 | 79 | 105 | 78 | 16 | 14 | 87.5000 | |
| mlin-fermikit | INDEL | D1_5 | map_l250_m2_e1 | * | 56.3873 | 42.7027 | 82.9787 | 91.9105 | 79 | 106 | 78 | 16 | 14 | 87.5000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 86.6742 | 85.1675 | 88.2353 | 70.5628 | 178 | 31 | 180 | 24 | 21 | 87.5000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 90.7398 | 88.1890 | 93.4426 | 69.3467 | 112 | 15 | 114 | 8 | 7 | 87.5000 | |