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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
53901-53950 / 86044 show all | |||||||||||||||
| ckim-dragen | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7253 | 99.7681 | 99.6824 | 38.1649 | 3442 | 8 | 3453 | 11 | 4 | 36.3636 | |
| ckim-gatk | INDEL | * | map_l150_m0_e0 | * | 94.2458 | 98.4436 | 90.3915 | 94.6603 | 506 | 8 | 508 | 54 | 4 | 7.4074 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.8557 | 99.0868 | 90.9713 | 82.4616 | 868 | 8 | 665 | 66 | 62 | 93.9394 | |
| ckim-gatk | INDEL | D16_PLUS | map_l100_m2_e1 | * | 89.8990 | 91.7526 | 88.1188 | 95.6893 | 89 | 8 | 89 | 12 | 4 | 33.3333 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6913 | 98.9362 | 92.6526 | 62.3535 | 744 | 8 | 744 | 59 | 58 | 98.3051 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.4812 | 99.4812 | 99.4812 | 78.2296 | 1534 | 8 | 1534 | 8 | 5 | 62.5000 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 97.8944 | 97.9221 | 97.8667 | 79.2359 | 377 | 8 | 367 | 8 | 7 | 87.5000 | |
| ckim-gatk | INDEL | D1_5 | map_l100_m2_e0 | hetalt | 90.9091 | 83.3333 | 100.0000 | 91.9922 | 40 | 8 | 41 | 0 | 0 | ||
| ckim-gatk | INDEL | D6_15 | * | homalt | 98.8810 | 99.8735 | 97.9079 | 55.6525 | 6318 | 8 | 6318 | 135 | 132 | 97.7778 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 99.4458 | 99.2885 | 99.6035 | 87.7940 | 1256 | 9 | 1256 | 5 | 5 | 100.0000 | |
| ckim-dragen | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.7412 | 99.7085 | 99.7738 | 68.8882 | 3079 | 9 | 3088 | 7 | 6 | 85.7143 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 96.3583 | 95.9459 | 96.7742 | 64.4262 | 213 | 9 | 210 | 7 | 4 | 57.1429 | |
| ckim-gatk | INDEL | * | map_l250_m1_e0 | * | 91.9255 | 97.0492 | 87.3156 | 97.0758 | 296 | 9 | 296 | 43 | 4 | 9.3023 | |
| ckim-gatk | INDEL | * | map_l250_m2_e0 | * | 92.5287 | 97.2810 | 88.2192 | 97.2498 | 322 | 9 | 322 | 43 | 4 | 9.3023 | |
| ckim-gatk | INDEL | * | map_l250_m2_e1 | * | 92.5714 | 97.2973 | 88.2834 | 97.3082 | 324 | 9 | 324 | 43 | 4 | 9.3023 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.1793 | 97.2561 | 99.1202 | 37.6600 | 319 | 9 | 338 | 3 | 3 | 100.0000 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.2867 | 99.8758 | 98.7045 | 36.9692 | 7238 | 9 | 7238 | 95 | 94 | 98.9474 | |
| ckim-gatk | INDEL | D1_5 | map_l100_m2_e1 | hetalt | 90.3226 | 82.3529 | 100.0000 | 91.7939 | 42 | 9 | 43 | 0 | 0 | ||
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.5462 | 99.4562 | 99.6364 | 61.3039 | 1646 | 9 | 1644 | 6 | 3 | 50.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 91.7431 | 84.7458 | 100.0000 | 72.2222 | 50 | 9 | 55 | 0 | 0 | ||
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.9997 | 91.5094 | 96.6292 | 86.9883 | 97 | 9 | 86 | 3 | 3 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.2507 | 97.3988 | 99.1176 | 69.7509 | 337 | 9 | 337 | 3 | 0 | 0.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 95.8140 | 91.9643 | 100.0000 | 71.9346 | 103 | 9 | 103 | 0 | 0 | ||
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.3173 | 99.3243 | 99.3103 | 72.7614 | 1323 | 9 | 1296 | 9 | 7 | 77.7778 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.2353 | 99.2360 | 97.2546 | 73.3953 | 1169 | 9 | 1169 | 33 | 33 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | map_l125_m1_e0 | het | 96.5689 | 98.1481 | 95.0397 | 91.4793 | 477 | 9 | 479 | 25 | 1 | 4.0000 | |
| ckim-gatk | INDEL | I1_5 | map_l125_m2_e0 | het | 96.5482 | 98.1891 | 94.9612 | 92.2054 | 488 | 9 | 490 | 26 | 1 | 3.8462 | |
| ckim-gatk | INDEL | I1_5 | map_l125_m2_e1 | het | 96.6215 | 98.2283 | 95.0664 | 92.2237 | 499 | 9 | 501 | 26 | 1 | 3.8462 | |
| ckim-gatk | INDEL | I1_5 | segdup | * | 98.0421 | 99.1501 | 96.9585 | 95.6110 | 1050 | 9 | 1052 | 33 | 2 | 6.0606 | |
| ckim-gatk | INDEL | I6_15 | * | homalt | 97.7332 | 99.8557 | 95.6989 | 54.8919 | 6230 | 9 | 6230 | 280 | 278 | 99.2857 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.7416 | 99.8545 | 99.6289 | 56.0363 | 6175 | 9 | 6175 | 23 | 2 | 8.6957 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.2678 | 96.7391 | 97.8022 | 91.0404 | 267 | 9 | 267 | 6 | 4 | 66.6667 | |
| ckim-gatk | SNP | * | map_l150_m1_e0 | hetalt | 70.9677 | 55.0000 | 100.0000 | 93.8202 | 11 | 9 | 11 | 0 | 0 | ||
| ckim-gatk | SNP | * | map_l150_m2_e0 | hetalt | 70.9677 | 55.0000 | 100.0000 | 94.8357 | 11 | 9 | 11 | 0 | 0 | ||
| ckim-gatk | SNP | * | map_l150_m2_e1 | hetalt | 70.9677 | 55.0000 | 100.0000 | 94.8357 | 11 | 9 | 11 | 0 | 0 | ||
| ckim-gatk | SNP | ti | HG002complexvar | hetalt | 97.5369 | 95.6522 | 99.4975 | 39.5137 | 198 | 9 | 198 | 1 | 1 | 100.0000 | |
| ckim-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 93.8776 | 91.0891 | 96.8421 | 93.5680 | 92 | 9 | 92 | 3 | 3 | 100.0000 | |
| 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_m1_e0 | hetalt | 76.9231 | 62.5000 | 100.0000 | 88.3721 | 15 | 9 | 15 | 0 | 0 | ||
| ckim-gatk | SNP | ti | map_l125_m2_e0 | hetalt | 76.9231 | 62.5000 | 100.0000 | 90.5063 | 15 | 9 | 15 | 0 | 0 | ||
| ckim-gatk | SNP | ti | map_l125_m2_e1 | hetalt | 76.9231 | 62.5000 | 100.0000 | 90.5063 | 15 | 9 | 15 | 0 | 0 | ||
| ckim-gatk | SNP | tv | func_cds | * | 99.5776 | 99.7941 | 99.3620 | 38.5208 | 4362 | 9 | 4361 | 28 | 0 | 0.0000 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 99.4064 | 99.2885 | 99.5246 | 88.1335 | 1256 | 9 | 1256 | 6 | 6 | 100.0000 | |
| ckim-gatk | SNP | tv | map_l150_m1_e0 | hetalt | 70.9677 | 55.0000 | 100.0000 | 93.8202 | 11 | 9 | 11 | 0 | 0 | ||
| ckim-gatk | SNP | tv | map_l150_m2_e0 | hetalt | 70.9677 | 55.0000 | 100.0000 | 94.8357 | 11 | 9 | 11 | 0 | 0 | ||
| ckim-gatk | SNP | tv | map_l150_m2_e1 | hetalt | 70.9677 | 55.0000 | 100.0000 | 94.8357 | 11 | 9 | 11 | 0 | 0 | ||
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | hetalt | 56.0000 | 43.7500 | 77.7778 | 99.2094 | 7 | 9 | 21 | 6 | 4 | 66.6667 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 89.4118 | 80.8511 | 100.0000 | 30.9091 | 38 | 9 | 38 | 0 | 0 | ||