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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
47351-47400 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 96.7391 | 96.7391 | 96.7391 | 70.4180 | 89 | 3 | 89 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.7552 | 97.5410 | 100.0000 | 72.2864 | 119 | 3 | 120 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 88.7848 | 98.4043 | 80.8786 | 56.7114 | 185 | 3 | 313 | 74 | 73 | 98.6486 | |
| asubramanian-gatk | INDEL | I6_15 | map_l100_m0_e0 | het | 87.6827 | 82.3529 | 93.7500 | 94.3060 | 14 | 3 | 15 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_l125_m1_e0 | homalt | 88.8889 | 80.0000 | 100.0000 | 93.9394 | 12 | 3 | 12 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I6_15 | map_l125_m2_e0 | homalt | 88.8889 | 80.0000 | 100.0000 | 94.6667 | 12 | 3 | 12 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I6_15 | map_l125_m2_e1 | homalt | 88.8889 | 80.0000 | 100.0000 | 94.8718 | 12 | 3 | 12 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I6_15 | map_l150_m0_e0 | * | 72.2892 | 62.5000 | 85.7143 | 97.4729 | 5 | 3 | 6 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_l150_m1_e0 | homalt | 72.7273 | 57.1429 | 100.0000 | 97.3510 | 4 | 3 | 4 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I6_15 | map_l150_m2_e0 | homalt | 72.7273 | 57.1429 | 100.0000 | 97.6879 | 4 | 3 | 4 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I6_15 | map_l150_m2_e1 | homalt | 76.9231 | 62.5000 | 100.0000 | 97.2376 | 5 | 3 | 5 | 0 | 0 | ||
| asubramanian-gatk | INDEL | I6_15 | map_l250_m1_e0 | * | 67.7966 | 57.1429 | 83.3333 | 98.1928 | 4 | 3 | 5 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_l250_m2_e0 | * | 71.4286 | 62.5000 | 83.3333 | 98.3380 | 5 | 3 | 5 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_l250_m2_e1 | * | 71.4286 | 62.5000 | 83.3333 | 98.4127 | 5 | 3 | 5 | 1 | 1 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_siren | hetalt | 97.1831 | 95.8333 | 98.5714 | 77.4194 | 69 | 3 | 69 | 1 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 77.2277 | 92.8571 | 66.1017 | 96.4046 | 39 | 3 | 39 | 20 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 87.2727 | 88.8889 | 85.7143 | 97.6549 | 24 | 3 | 24 | 4 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 78.3505 | 92.6829 | 67.8571 | 90.1060 | 38 | 3 | 38 | 18 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | * | tech_badpromoters | * | 98.4026 | 98.0892 | 98.7179 | 49.3506 | 154 | 3 | 154 | 2 | 2 | 100.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.8361 | 99.8770 | 99.7952 | 51.6436 | 2436 | 3 | 2437 | 5 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 95.5224 | 91.4286 | 100.0000 | 92.2892 | 32 | 3 | 32 | 0 | 0 | ||
| asubramanian-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.6872 | 99.3763 | 100.0000 | 45.8664 | 478 | 3 | 478 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7043 | 99.9506 | 99.4592 | 57.8271 | 6069 | 3 | 6069 | 33 | 32 | 96.9697 | |
| bgallagher-sentieon | INDEL | * | map_l125_m2_e1 | hetalt | 96.3855 | 93.0233 | 100.0000 | 92.6874 | 40 | 3 | 40 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | * | map_l250_m0_e0 | het | 88.4956 | 94.3396 | 83.3333 | 97.8198 | 50 | 3 | 50 | 10 | 1 | 10.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | HG002compoundhet | het | 87.9457 | 99.2593 | 78.9474 | 58.5057 | 402 | 3 | 285 | 76 | 73 | 96.0526 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 96.0600 | 98.8417 | 93.4307 | 60.0583 | 256 | 3 | 256 | 18 | 17 | 94.4444 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.0769 | 99.5816 | 96.6171 | 61.4099 | 714 | 3 | 714 | 25 | 24 | 96.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 96.6882 | 99.4307 | 94.0928 | 82.7133 | 524 | 3 | 446 | 28 | 28 | 100.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.8262 | 99.5074 | 94.2857 | 83.6449 | 606 | 3 | 528 | 32 | 23 | 71.8750 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 93.6170 | 88.0000 | 100.0000 | 45.4545 | 22 | 3 | 24 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.8372 | 98.8372 | 98.8372 | 63.4561 | 255 | 3 | 255 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 97.2603 | 95.9459 | 98.6111 | 80.4878 | 71 | 3 | 71 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 92.3833 | 99.2084 | 86.4368 | 60.3102 | 376 | 3 | 376 | 59 | 59 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l100_m1_e0 | homalt | 99.5773 | 99.4932 | 99.6616 | 83.0562 | 589 | 3 | 589 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l100_m2_e0 | homalt | 99.5905 | 99.5090 | 99.6721 | 83.7116 | 608 | 3 | 608 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l100_m2_e1 | homalt | 99.5964 | 99.5161 | 99.6769 | 83.7873 | 617 | 3 | 617 | 2 | 2 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | segdup | het | 99.4950 | 99.5665 | 99.4236 | 94.8997 | 689 | 3 | 690 | 4 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 91.5902 | 99.5017 | 84.8442 | 51.7430 | 599 | 3 | 599 | 107 | 106 | 99.0654 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.4618 | 99.9203 | 95.1213 | 59.6779 | 3763 | 3 | 3763 | 193 | 190 | 98.4456 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 96.0000 | 92.3077 | 100.0000 | 57.6471 | 36 | 3 | 36 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 96.3131 | 94.5455 | 98.1481 | 61.7021 | 52 | 3 | 53 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5949 | 99.6524 | 99.5376 | 63.4713 | 860 | 3 | 861 | 4 | 3 | 75.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 93.7973 | 90.9091 | 96.8750 | 61.4458 | 30 | 3 | 31 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 91.0808 | 99.3135 | 84.1085 | 47.7204 | 434 | 3 | 434 | 82 | 82 | 100.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 96.9036 | 99.8930 | 94.0880 | 54.4523 | 2801 | 3 | 2801 | 176 | 175 | 99.4318 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.2325 | 99.9052 | 94.6990 | 55.6809 | 3162 | 3 | 3162 | 177 | 175 | 98.8701 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.4618 | 99.9203 | 95.1213 | 59.6779 | 3763 | 3 | 3763 | 193 | 190 | 98.4456 | |
| bgallagher-sentieon | INDEL | D6_15 | map_l100_m0_e0 | * | 95.6938 | 97.0874 | 94.3396 | 90.0094 | 100 | 3 | 100 | 6 | 1 | 16.6667 | |
| bgallagher-sentieon | INDEL | D6_15 | map_l100_m2_e0 | het | 95.5224 | 97.7099 | 93.4307 | 90.1722 | 128 | 3 | 128 | 9 | 2 | 22.2222 | |