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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
38801-38850 / 86044 show all | |||||||||||||||
| jmaeng-gatk | INDEL | * | map_l150_m2_e0 | hetalt | 92.3077 | 85.7143 | 100.0000 | 96.1207 | 18 | 3 | 18 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D16_PLUS | HG002compoundhet | het | 87.0277 | 99.2593 | 77.4799 | 58.6932 | 402 | 3 | 289 | 84 | 83 | 98.8095 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.7179 | 98.0892 | 99.3548 | 70.4198 | 154 | 3 | 154 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 93.6170 | 88.0000 | 100.0000 | 45.2381 | 22 | 3 | 23 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D16_PLUS | map_siren | het | 92.3788 | 96.1538 | 88.8889 | 96.1410 | 75 | 3 | 72 | 9 | 2 | 22.2222 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 94.4444 | 91.8919 | 97.1429 | 86.3281 | 34 | 3 | 34 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | map_l125_m0_e0 | homalt | 98.3051 | 97.9730 | 98.6395 | 87.1166 | 145 | 3 | 145 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | map_l150_m0_e0 | het | 92.5894 | 98.5149 | 87.3362 | 94.7966 | 199 | 3 | 200 | 29 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | D1_5 | map_l150_m1_e0 | hetalt | 72.7273 | 57.1429 | 100.0000 | 98.4436 | 4 | 3 | 4 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D1_5 | map_l150_m2_e0 | hetalt | 72.7273 | 57.1429 | 100.0000 | 98.6254 | 4 | 3 | 4 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D1_5 | map_l150_m2_e1 | hetalt | 76.9231 | 62.5000 | 100.0000 | 98.3165 | 5 | 3 | 5 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.8981 | 99.9175 | 97.8993 | 62.0929 | 3635 | 3 | 3635 | 78 | 75 | 96.1538 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 82.5065 | 98.1366 | 71.1712 | 37.2881 | 158 | 3 | 158 | 64 | 64 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | map_l100_m0_e0 | * | 96.6184 | 97.0874 | 96.1538 | 91.7916 | 100 | 3 | 100 | 4 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | D6_15 | map_l100_m1_e0 | het | 96.0938 | 97.6190 | 94.6154 | 92.1734 | 123 | 3 | 123 | 7 | 2 | 28.5714 | |
| jmaeng-gatk | INDEL | D6_15 | map_l100_m1_e0 | homalt | 96.8254 | 95.3125 | 98.3871 | 86.7804 | 61 | 3 | 61 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | map_l100_m2_e0 | homalt | 96.8750 | 95.3846 | 98.4127 | 87.3494 | 62 | 3 | 62 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | map_l100_m2_e1 | homalt | 96.9697 | 95.5224 | 98.4615 | 87.2798 | 64 | 3 | 64 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | map_l125_m2_e0 | het | 95.7746 | 95.7746 | 95.7746 | 94.4876 | 68 | 3 | 68 | 3 | 1 | 33.3333 | |
| jmaeng-gatk | INDEL | D6_15 | map_l125_m2_e1 | het | 95.7746 | 95.7746 | 95.7746 | 94.6049 | 68 | 3 | 68 | 3 | 1 | 33.3333 | |
| jmaeng-gatk | INDEL | D6_15 | segdup | het | 95.1872 | 96.7391 | 93.6842 | 96.4932 | 89 | 3 | 89 | 6 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.5915 | 97.2222 | 100.0000 | 80.9259 | 105 | 3 | 103 | 0 | 0 | ||
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 93.7471 | 93.6170 | 93.8776 | 80.9339 | 44 | 3 | 46 | 3 | 2 | 66.6667 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 92.7198 | 89.2857 | 96.4286 | 59.4203 | 25 | 3 | 27 | 1 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | map_siren | * | 94.8959 | 96.5116 | 93.3333 | 92.9961 | 83 | 3 | 84 | 6 | 1 | 16.6667 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.7409 | 99.6119 | 99.8703 | 78.8245 | 770 | 3 | 770 | 1 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 97.4359 | 95.0000 | 100.0000 | 78.6517 | 57 | 3 | 57 | 0 | 0 | ||
| jmaeng-gatk | INDEL | I1_5 | map_l100_m1_e0 | hetalt | 96.4706 | 93.1818 | 100.0000 | 88.7671 | 41 | 3 | 41 | 0 | 0 | ||
| jmaeng-gatk | INDEL | I1_5 | map_l100_m2_e0 | hetalt | 96.4706 | 93.1818 | 100.0000 | 89.6465 | 41 | 3 | 41 | 0 | 0 | ||
| jmaeng-gatk | INDEL | I1_5 | map_l100_m2_e1 | hetalt | 96.5517 | 93.3333 | 100.0000 | 89.6296 | 42 | 3 | 42 | 0 | 0 | ||
| jmaeng-gatk | INDEL | I1_5 | map_l250_m0_e0 | * | 89.3617 | 87.5000 | 91.3043 | 98.8990 | 21 | 3 | 21 | 2 | 1 | 50.0000 | |
| jmaeng-gatk | INDEL | I1_5 | map_l250_m0_e0 | het | 85.7143 | 80.0000 | 92.3077 | 99.2499 | 12 | 3 | 12 | 1 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.1453 | 98.3051 | 100.0000 | 74.5985 | 174 | 3 | 174 | 0 | 0 | ||
| jmaeng-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.3488 | 93.1818 | 97.6190 | 73.0769 | 41 | 3 | 41 | 1 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.5224 | 91.4286 | 100.0000 | 91.2892 | 32 | 3 | 25 | 0 | 0 | ||
| jmaeng-gatk | INDEL | I6_15 | map_l100_m0_e0 | het | 82.3529 | 82.3529 | 82.3529 | 95.1429 | 14 | 3 | 14 | 3 | 1 | 33.3333 | |
| jmaeng-gatk | INDEL | I6_15 | map_l125_m0_e0 | het | 66.6667 | 66.6667 | 66.6667 | 96.8085 | 6 | 3 | 6 | 3 | 1 | 33.3333 | |
| jmaeng-gatk | INDEL | I6_15 | map_l150_m1_e0 | het | 80.0000 | 80.0000 | 80.0000 | 96.6292 | 12 | 3 | 12 | 3 | 1 | 33.3333 | |
| jmaeng-gatk | INDEL | I6_15 | map_l150_m2_e0 | het | 80.0000 | 80.0000 | 80.0000 | 97.0060 | 12 | 3 | 12 | 3 | 1 | 33.3333 | |
| jmaeng-gatk | INDEL | I6_15 | map_l150_m2_e1 | het | 81.2500 | 81.2500 | 81.2500 | 96.9112 | 13 | 3 | 13 | 3 | 1 | 33.3333 | |
| jmaeng-gatk | INDEL | I6_15 | map_l250_m1_e0 | * | 66.6667 | 57.1429 | 80.0000 | 98.7277 | 4 | 3 | 4 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | map_l250_m2_e0 | * | 71.4286 | 62.5000 | 83.3333 | 98.6577 | 5 | 3 | 5 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | map_l250_m2_e1 | * | 71.4286 | 62.5000 | 83.3333 | 98.7207 | 5 | 3 | 5 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | segdup | * | 97.4504 | 98.2857 | 96.6292 | 94.0168 | 172 | 3 | 172 | 6 | 0 | 0.0000 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.9067 | 99.8135 | 100.0000 | 43.7478 | 1606 | 3 | 1606 | 0 | 0 | ||
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.8583 | 99.9226 | 99.7940 | 60.8923 | 3875 | 3 | 3875 | 8 | 0 | 0.0000 | |
| jmaeng-gatk | SNP | * | tech_badpromoters | het | 98.0132 | 96.1039 | 100.0000 | 48.2517 | 74 | 3 | 74 | 0 | 0 | ||
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 99.8668 | 99.7340 | 100.0000 | 42.7189 | 1125 | 3 | 1125 | 0 | 0 | ||
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 97.7778 | 95.6522 | 100.0000 | 90.5983 | 66 | 3 | 66 | 0 | 0 | ||
| jmaeng-gatk | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.9111 | 99.8223 | 100.0000 | 64.1566 | 1685 | 3 | 1685 | 0 | 0 | ||