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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
49551-49600 / 86044 show all | |||||||||||||||
| asubramanian-gatk | SNP | tv | map_l250_m2_e0 | hetalt | 33.3333 | 20.0000 | 100.0000 | 98.5915 | 1 | 4 | 1 | 0 | 0 | ||
| asubramanian-gatk | SNP | tv | map_l250_m2_e1 | hetalt | 33.3333 | 20.0000 | 100.0000 | 98.5915 | 1 | 4 | 1 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9204 | 99.9646 | 99.8762 | 56.3374 | 11292 | 4 | 11292 | 14 | 13 | 92.8571 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 89.5537 | 92.0000 | 87.2340 | 85.8859 | 46 | 4 | 41 | 6 | 3 | 50.0000 | |
| bgallagher-sentieon | INDEL | * | map_l100_m0_e0 | homalt | 98.5366 | 99.2141 | 97.8682 | 84.8680 | 505 | 4 | 505 | 11 | 5 | 45.4545 | |
| bgallagher-sentieon | INDEL | * | map_l125_m1_e0 | homalt | 99.2502 | 99.4536 | 99.0476 | 85.8491 | 728 | 4 | 728 | 7 | 4 | 57.1429 | |
| bgallagher-sentieon | INDEL | * | map_l125_m2_e0 | homalt | 99.1509 | 99.4758 | 98.8281 | 86.7266 | 759 | 4 | 759 | 9 | 4 | 44.4444 | |
| bgallagher-sentieon | INDEL | * | map_l125_m2_e1 | homalt | 99.1629 | 99.4832 | 98.8447 | 86.8279 | 770 | 4 | 770 | 9 | 4 | 44.4444 | |
| bgallagher-sentieon | INDEL | * | map_l150_m1_e0 | homalt | 98.9201 | 99.1342 | 98.7069 | 88.3417 | 458 | 4 | 458 | 6 | 3 | 50.0000 | |
| bgallagher-sentieon | INDEL | * | map_l150_m2_e0 | homalt | 98.9627 | 99.1684 | 98.7578 | 89.3260 | 477 | 4 | 477 | 6 | 3 | 50.0000 | |
| bgallagher-sentieon | INDEL | * | map_l150_m2_e1 | homalt | 98.8855 | 99.1870 | 98.5859 | 89.3019 | 488 | 4 | 488 | 7 | 4 | 57.1429 | |
| bgallagher-sentieon | INDEL | * | map_l250_m0_e0 | * | 90.2439 | 94.8718 | 86.0465 | 97.7598 | 74 | 4 | 74 | 12 | 2 | 16.6667 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.9940 | 99.1803 | 94.9020 | 71.6981 | 484 | 4 | 484 | 26 | 22 | 84.6154 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3337 | 99.5146 | 99.1536 | 70.9926 | 820 | 4 | 820 | 7 | 1 | 14.2857 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.9825 | 99.0991 | 98.8662 | 75.3356 | 440 | 4 | 436 | 5 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2382 | 99.0025 | 99.4751 | 81.5138 | 397 | 4 | 379 | 2 | 1 | 50.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | map_l100_m1_e0 | hetalt | 91.6667 | 84.6154 | 100.0000 | 78.5047 | 22 | 4 | 23 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | D16_PLUS | map_l100_m2_e0 | hetalt | 91.6667 | 84.6154 | 100.0000 | 79.3103 | 22 | 4 | 24 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | D16_PLUS | map_siren | hetalt | 93.1034 | 87.0968 | 100.0000 | 82.6347 | 27 | 4 | 29 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.5576 | 99.9158 | 97.2359 | 49.7376 | 4749 | 4 | 4749 | 135 | 134 | 99.2593 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9362 | 99.9607 | 99.9116 | 54.3220 | 10174 | 4 | 10174 | 9 | 9 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l100_m1_e0 | hetalt | 94.5055 | 91.4894 | 97.7273 | 89.3462 | 43 | 4 | 43 | 1 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l100_m2_e0 | hetalt | 94.6463 | 91.6667 | 97.8261 | 89.7092 | 44 | 4 | 45 | 1 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l100_m2_e1 | hetalt | 94.9695 | 92.1569 | 97.9592 | 89.3478 | 47 | 4 | 48 | 1 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l125_m0_e0 | het | 97.4343 | 98.8406 | 96.0674 | 89.1958 | 341 | 4 | 342 | 14 | 1 | 7.1429 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l150_m1_e0 | het | 97.7580 | 99.1701 | 96.3855 | 89.4826 | 478 | 4 | 480 | 18 | 3 | 16.6667 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l150_m2_e0 | het | 97.8953 | 99.2218 | 96.6038 | 89.9048 | 510 | 4 | 512 | 18 | 3 | 16.6667 | |
| bgallagher-sentieon | INDEL | D1_5 | map_siren | homalt | 99.6580 | 99.6575 | 99.6584 | 81.1615 | 1164 | 4 | 1167 | 4 | 4 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | segdup | * | 99.5476 | 99.6374 | 99.4580 | 94.7935 | 1099 | 4 | 1101 | 6 | 2 | 33.3333 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.2332 | 96.8504 | 97.6190 | 78.7879 | 123 | 4 | 123 | 3 | 2 | 66.6667 | |
| anovak-vg | INDEL | I1_5 | map_l100_m0_e0 | hetalt | 0.0000 | 55.5556 | 0.0000 | 0.0000 | 5 | 4 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | I1_5 | tech_badpromoters | homalt | 72.8745 | 69.2308 | 76.9231 | 40.9091 | 9 | 4 | 10 | 3 | 2 | 66.6667 | |
| anovak-vg | INDEL | I6_15 | map_l250_m1_e0 | * | 48.9796 | 42.8571 | 57.1429 | 96.3918 | 3 | 4 | 4 | 3 | 1 | 33.3333 | |
| anovak-vg | INDEL | I6_15 | map_l250_m2_e0 | * | 53.3333 | 50.0000 | 57.1429 | 96.6825 | 4 | 4 | 4 | 3 | 1 | 33.3333 | |
| anovak-vg | INDEL | I6_15 | map_l250_m2_e1 | * | 53.3333 | 50.0000 | 57.1429 | 96.8037 | 4 | 4 | 4 | 3 | 1 | 33.3333 | |
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 0.0000 | 20.0000 | 0.0000 | 0.0000 | 1 | 4 | 0 | 0 | 0 | ||
| anovak-vg | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 0.0000 | 20.0000 | 0.0000 | 0.0000 | 1 | 4 | 0 | 0 | 0 | ||
| anovak-vg | SNP | * | map_l250_m2_e0 | hetalt | 0.0000 | 20.0000 | 0.0000 | 0.0000 | 1 | 4 | 0 | 0 | 0 | ||
| anovak-vg | SNP | * | map_l250_m2_e1 | hetalt | 0.0000 | 20.0000 | 0.0000 | 0.0000 | 1 | 4 | 0 | 0 | 0 | ||
| anovak-vg | SNP | ti | lowcmp_SimpleRepeat_diTR_51to200 | * | 76.9231 | 75.0000 | 78.9474 | 96.1538 | 12 | 4 | 15 | 4 | 3 | 75.0000 | |
| anovak-vg | SNP | ti | map_l250_m2_e0 | hetalt | 0.0000 | 20.0000 | 0.0000 | 0.0000 | 1 | 4 | 0 | 0 | 0 | ||
| anovak-vg | SNP | ti | map_l250_m2_e1 | hetalt | 0.0000 | 20.0000 | 0.0000 | 0.0000 | 1 | 4 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 66.6667 | 55.5556 | 83.3333 | 94.7826 | 5 | 4 | 5 | 1 | 0 | 0.0000 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 0.0000 | 20.0000 | 0.0000 | 0.0000 | 1 | 4 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 0.0000 | 20.0000 | 0.0000 | 0.0000 | 1 | 4 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | map_l250_m2_e0 | hetalt | 0.0000 | 20.0000 | 0.0000 | 0.0000 | 1 | 4 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | map_l250_m2_e1 | hetalt | 0.0000 | 20.0000 | 0.0000 | 0.0000 | 1 | 4 | 0 | 0 | 0 | ||
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 98.0901 | 96.9697 | 99.2366 | 79.9080 | 128 | 4 | 130 | 1 | 1 | 100.0000 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.9292 | 99.9646 | 99.8938 | 56.3468 | 11292 | 4 | 11292 | 12 | 11 | 91.6667 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 90.5425 | 92.0000 | 89.1304 | 86.3905 | 46 | 4 | 41 | 5 | 2 | 40.0000 | |