PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
36001-36050 / 86044 show all | |||||||||||||||
| ckim-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.5490 | 99.1830 | 99.9177 | 59.4324 | 1214 | 10 | 1214 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.5260 | 99.0651 | 99.9913 | 63.9562 | 11444 | 108 | 11444 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.7781 | 99.6454 | 99.9111 | 42.5727 | 1124 | 4 | 1124 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.7720 | 99.5863 | 99.9585 | 72.9893 | 2407 | 10 | 2407 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.5260 | 99.0651 | 99.9913 | 63.9562 | 11444 | 108 | 11444 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7906 | 99.6556 | 99.9260 | 49.2362 | 4051 | 14 | 4051 | 3 | 1 | 33.3333 | |
| ckim-gatk | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.8184 | 99.8386 | 99.7982 | 36.6402 | 2474 | 4 | 2473 | 5 | 1 | 20.0000 | |
| ckim-gatk | SNP | ti | map_l100_m1_e0 | hetalt | 80.0000 | 68.9655 | 95.2381 | 87.2727 | 20 | 9 | 20 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | ti | map_l100_m2_e0 | hetalt | 80.7692 | 70.0000 | 95.4545 | 88.0435 | 21 | 9 | 21 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | ti | map_l100_m2_e1 | hetalt | 81.4815 | 70.9677 | 95.6522 | 87.5676 | 22 | 9 | 22 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | ti | map_l125_m0_e0 | homalt | 69.8436 | 53.6851 | 99.9171 | 79.2054 | 2411 | 2080 | 2411 | 2 | 1 | 50.0000 | |
| ckim-gatk | SNP | ti | map_l150_m0_e0 | homalt | 65.8246 | 49.0764 | 99.9263 | 84.8914 | 1355 | 1406 | 1355 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | ti | tech_badpromoters | * | 98.8235 | 98.8235 | 98.8235 | 44.8052 | 84 | 1 | 84 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | ti | tech_badpromoters | homalt | 98.7952 | 100.0000 | 97.6190 | 41.6667 | 41 | 0 | 41 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | HG002complexvar | hetalt | 98.0328 | 96.4516 | 99.6667 | 39.8798 | 299 | 11 | 299 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.4059 | 99.0138 | 99.8012 | 86.2267 | 502 | 5 | 502 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.4652 | 99.1471 | 99.7854 | 85.4602 | 465 | 4 | 465 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.7660 | 99.5995 | 99.9330 | 79.6677 | 1492 | 6 | 1492 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.7448 | 99.5473 | 99.9432 | 60.9323 | 1759 | 8 | 1759 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.8353 | 99.6779 | 98.0069 | 41.1938 | 7428 | 24 | 7425 | 151 | 1 | 0.6623 | |
| ckim-gatk | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.2863 | 99.7441 | 96.8705 | 43.6595 | 4677 | 12 | 4674 | 151 | 1 | 0.6623 | |
| ckim-gatk | SNP | tv | map_l100_m1_e0 | hetalt | 78.2609 | 65.8537 | 96.4286 | 89.0625 | 27 | 14 | 27 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | map_l100_m2_e0 | hetalt | 78.8732 | 66.6667 | 96.5517 | 90.1024 | 28 | 14 | 28 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | map_l100_m2_e1 | hetalt | 79.4521 | 67.4419 | 96.6667 | 89.7959 | 29 | 14 | 29 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | map_l250_m1_e0 | * | 67.6636 | 52.1345 | 96.3687 | 96.3674 | 1380 | 1267 | 1380 | 52 | 1 | 1.9231 | |
| ckim-gatk | SNP | tv | map_l250_m1_e0 | het | 70.9926 | 56.6312 | 95.1128 | 96.8261 | 1012 | 775 | 1012 | 52 | 1 | 1.9231 | |
| ckim-gatk | SNP | tv | map_l250_m2_e0 | * | 69.3914 | 54.1985 | 96.4198 | 96.4303 | 1562 | 1320 | 1562 | 58 | 1 | 1.7241 | |
| ckim-gatk | SNP | tv | map_l250_m2_e0 | het | 72.7389 | 58.8660 | 95.1667 | 96.8726 | 1142 | 798 | 1142 | 58 | 1 | 1.7241 | |
| ckim-gatk | SNP | tv | map_l250_m2_e1 | * | 69.6890 | 54.5610 | 96.4242 | 96.4387 | 1591 | 1325 | 1591 | 59 | 1 | 1.6949 | |
| ckim-gatk | SNP | tv | map_l250_m2_e1 | het | 72.9840 | 59.1858 | 95.1718 | 96.8842 | 1163 | 802 | 1163 | 59 | 1 | 1.6949 | |
| ckim-gatk | SNP | tv | tech_badpromoters | * | 97.9021 | 97.2222 | 98.5915 | 53.2895 | 70 | 2 | 70 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | tv | tech_badpromoters | homalt | 97.4359 | 97.4359 | 97.4359 | 51.8519 | 38 | 1 | 38 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | * | func_cds | * | 97.5940 | 95.7303 | 99.5316 | 35.2049 | 426 | 19 | 425 | 2 | 1 | 50.0000 | |
| ckim-isaac | INDEL | * | func_cds | het | 97.8678 | 96.7290 | 99.0338 | 42.5000 | 207 | 7 | 205 | 2 | 1 | 50.0000 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 70.2703 | 61.9048 | 81.2500 | 99.9411 | 13 | 8 | 13 | 3 | 1 | 33.3333 | |
| ckim-isaac | INDEL | * | map_l100_m0_e0 | hetalt | 82.6291 | 72.7273 | 95.6522 | 89.6396 | 24 | 9 | 22 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | * | map_l100_m0_e0 | homalt | 72.6368 | 57.3674 | 98.9831 | 75.1684 | 292 | 217 | 292 | 3 | 1 | 33.3333 | |
| ckim-isaac | INDEL | * | map_l125_m1_e0 | homalt | 72.9473 | 57.6503 | 99.2941 | 79.6358 | 422 | 310 | 422 | 3 | 1 | 33.3333 | |
| ckim-isaac | INDEL | * | map_l125_m2_e0 | homalt | 73.3884 | 58.1913 | 99.3289 | 81.2185 | 444 | 319 | 444 | 3 | 1 | 33.3333 | |
| ckim-isaac | INDEL | * | map_l125_m2_e1 | homalt | 73.5557 | 58.3979 | 99.3407 | 81.3295 | 452 | 322 | 452 | 3 | 1 | 33.3333 | |
| ckim-isaac | INDEL | * | map_l150_m1_e0 | homalt | 68.4583 | 52.3810 | 98.7755 | 83.8391 | 242 | 220 | 242 | 3 | 1 | 33.3333 | |
| ckim-isaac | INDEL | * | map_l150_m2_e0 | homalt | 68.8347 | 52.8067 | 98.8327 | 85.5211 | 254 | 227 | 254 | 3 | 1 | 33.3333 | |
| ckim-isaac | INDEL | * | map_l150_m2_e1 | homalt | 69.0476 | 53.0488 | 98.8636 | 85.5104 | 261 | 231 | 261 | 3 | 1 | 33.3333 | |
| ckim-isaac | INDEL | * | map_l250_m0_e0 | * | 70.4918 | 55.1282 | 97.7273 | 98.2952 | 43 | 35 | 43 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | * | map_l250_m0_e0 | het | 75.8621 | 62.2642 | 97.0588 | 98.4760 | 33 | 20 | 33 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | * | segdup | hetalt | 89.9263 | 82.3077 | 99.0991 | 92.8479 | 107 | 23 | 110 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.7899 | 99.7908 | 99.7890 | 71.4801 | 477 | 1 | 473 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 79.6460 | 66.5049 | 99.2593 | 44.6721 | 137 | 69 | 134 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 89.4961 | 81.4815 | 99.2593 | 43.5146 | 22 | 5 | 134 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 93.0465 | 88.2353 | 98.4127 | 67.1447 | 45 | 6 | 248 | 4 | 1 | 25.0000 | |