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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
38901-38950 / 86044 show all | |||||||||||||||
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 26.5613 | 34.4262 | 21.6216 | 60.9155 | 21 | 40 | 24 | 87 | 40 | 45.9770 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 100.0000 | 100.0000 | 100.0000 | 91.9732 | 24 | 0 | 24 | 0 | 0 | ||
| ckim-gatk | INDEL | I16_PLUS | map_l100_m1_e0 | * | 94.1176 | 92.3077 | 96.0000 | 96.2179 | 24 | 2 | 24 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | I16_PLUS | map_l100_m2_e0 | * | 90.5660 | 92.3077 | 88.8889 | 96.4333 | 24 | 2 | 24 | 3 | 0 | 0.0000 | |
| ckim-gatk | INDEL | I16_PLUS | map_l100_m2_e1 | * | 90.5660 | 92.3077 | 88.8889 | 96.4520 | 24 | 2 | 24 | 3 | 0 | 0.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 96.0000 | 96.0000 | 96.0000 | 62.6866 | 24 | 1 | 24 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | I6_15 | func_cds | het | 100.0000 | 100.0000 | 100.0000 | 44.1860 | 24 | 0 | 24 | 0 | 0 | ||
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 88.8889 | 100.0000 | 80.0000 | 79.4521 | 24 | 0 | 24 | 6 | 6 | 100.0000 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 87.2727 | 100.0000 | 77.4194 | 74.5902 | 24 | 0 | 24 | 7 | 6 | 85.7143 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 93.6170 | 88.0000 | 100.0000 | 44.1860 | 22 | 3 | 24 | 0 | 0 | ||
| ckim-dragen | INDEL | D16_PLUS | map_l100_m0_e0 | * | 72.7273 | 85.7143 | 63.1579 | 96.7438 | 24 | 4 | 24 | 14 | 1 | 7.1429 | |
| ckim-dragen | INDEL | D16_PLUS | map_l100_m2_e0 | hetalt | 91.6667 | 84.6154 | 100.0000 | 77.5701 | 22 | 4 | 24 | 0 | 0 | ||
| ckim-dragen | INDEL | D6_15 | HG002compoundhet | homalt | 12.7321 | 100.0000 | 6.7989 | 76.0353 | 24 | 0 | 24 | 329 | 328 | 99.6960 | |
| ckim-dragen | INDEL | D6_15 | map_l150_m1_e0 | homalt | 96.0000 | 92.3077 | 100.0000 | 91.8919 | 24 | 2 | 24 | 0 | 0 | ||
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 100.0000 | 100.0000 | 100.0000 | 91.0448 | 24 | 0 | 24 | 0 | 0 | ||
| ckim-dragen | INDEL | I16_PLUS | map_l100_m1_e0 | * | 90.5660 | 92.3077 | 88.8889 | 93.8215 | 24 | 2 | 24 | 3 | 0 | 0.0000 | |
| ckim-dragen | INDEL | I16_PLUS | map_l100_m2_e0 | * | 88.8889 | 92.3077 | 85.7143 | 94.7269 | 24 | 2 | 24 | 4 | 0 | 0.0000 | |
| ckim-dragen | INDEL | I16_PLUS | map_l100_m2_e1 | * | 88.8889 | 92.3077 | 85.7143 | 94.7955 | 24 | 2 | 24 | 4 | 0 | 0.0000 | |
| ckim-dragen | INDEL | I16_PLUS | segdup | het | 100.0000 | 100.0000 | 100.0000 | 97.2540 | 24 | 0 | 24 | 0 | 0 | ||
| ckim-dragen | INDEL | I6_15 | func_cds | het | 100.0000 | 100.0000 | 100.0000 | 46.6667 | 24 | 0 | 24 | 0 | 0 | ||
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 85.7143 | 100.0000 | 75.0000 | 78.9474 | 24 | 0 | 24 | 8 | 8 | 100.0000 | |
| ckim-dragen | INDEL | I6_15 | map_l150_m1_e0 | * | 97.9592 | 96.0000 | 100.0000 | 95.0719 | 24 | 1 | 24 | 0 | 0 | ||
| ckim-dragen | INDEL | I6_15 | map_l150_m2_e0 | * | 97.9592 | 96.0000 | 100.0000 | 95.7219 | 24 | 1 | 24 | 0 | 0 | ||
| ckim-dragen | SNP | ti | map_l125_m1_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 75.0000 | 24 | 0 | 24 | 0 | 0 | ||
| ckim-dragen | SNP | ti | map_l125_m2_e0 | hetalt | 100.0000 | 100.0000 | 100.0000 | 78.5714 | 24 | 0 | 24 | 0 | 0 | ||
| ckim-dragen | SNP | ti | map_l125_m2_e1 | hetalt | 100.0000 | 100.0000 | 100.0000 | 78.5714 | 24 | 0 | 24 | 0 | 0 | ||
| ciseli-custom | INDEL | C1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 0.0000 | 0.0000 | 72.7273 | 97.1354 | 0 | 0 | 24 | 9 | 2 | 22.2222 | |
| ciseli-custom | INDEL | C6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 35.5556 | 100.0000 | 21.6216 | 96.1973 | 1 | 0 | 24 | 87 | 22 | 25.2874 | |
| ciseli-custom | INDEL | D16_PLUS | map_siren | homalt | 60.7595 | 70.5882 | 53.3333 | 89.9103 | 24 | 10 | 24 | 21 | 16 | 76.1905 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 18.1984 | 12.1359 | 36.3636 | 91.4286 | 25 | 181 | 24 | 42 | 24 | 57.1429 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 59.2593 | 66.6667 | 53.3333 | 64.0000 | 24 | 12 | 24 | 21 | 20 | 95.2381 | |
| ciseli-custom | INDEL | I6_15 | map_siren | homalt | 35.9820 | 27.7778 | 51.0638 | 81.4961 | 25 | 65 | 24 | 23 | 20 | 86.9565 | |
| ckim-gatk | INDEL | * | map_l250_m0_e0 | homalt | 96.0000 | 96.0000 | 96.0000 | 97.7085 | 24 | 1 | 24 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | D16_PLUS | map_l100_m2_e0 | hetalt | 91.6667 | 84.6154 | 100.0000 | 77.5701 | 22 | 4 | 24 | 0 | 0 | ||
| ckim-gatk | INDEL | D6_15 | HG002compoundhet | homalt | 27.1186 | 100.0000 | 15.6863 | 71.0775 | 24 | 0 | 24 | 129 | 128 | 99.2248 | |
| cchapple-custom | INDEL | C1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 64.8649 | 93.6097 | 0 | 0 | 24 | 13 | 3 | 23.0769 | |
| cchapple-custom | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 0.0000 | 0.0000 | 100.0000 | 94.7712 | 0 | 0 | 24 | 0 | 0 | ||
| cchapple-custom | INDEL | D6_15 | map_l150_m1_e0 | homalt | 94.1176 | 92.3077 | 96.0000 | 85.7955 | 24 | 2 | 24 | 1 | 1 | 100.0000 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 100.0000 | 100.0000 | 100.0000 | 88.7850 | 24 | 0 | 24 | 0 | 0 | ||
| ckim-dragen | INDEL | * | map_l250_m0_e0 | homalt | 96.0000 | 96.0000 | 96.0000 | 97.1198 | 24 | 1 | 24 | 1 | 1 | 100.0000 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 100.0000 | 100.0000 | 100.0000 | 70.8861 | 19 | 0 | 23 | 0 | 0 | ||
| ckim-dragen | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 100.0000 | 100.0000 | 100.0000 | 87.2928 | 23 | 0 | 23 | 0 | 0 | ||
| ckim-dragen | INDEL | D16_PLUS | map_l100_m1_e0 | hetalt | 91.6667 | 84.6154 | 100.0000 | 76.7677 | 22 | 4 | 23 | 0 | 0 | ||
| ckim-dragen | INDEL | I16_PLUS | HG002compoundhet | het | 95.7890 | 95.7447 | 95.8333 | 94.6309 | 45 | 2 | 23 | 1 | 1 | 100.0000 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 85.1852 | 100.0000 | 74.1935 | 86.8644 | 23 | 0 | 23 | 8 | 8 | 100.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 95.8333 | 92.0000 | 100.0000 | 65.1515 | 23 | 2 | 23 | 0 | 0 | ||
| ckim-dragen | INDEL | I1_5 | map_l250_m0_e0 | * | 92.0000 | 95.8333 | 88.4615 | 97.8862 | 23 | 1 | 23 | 3 | 1 | 33.3333 | |
| ckim-dragen | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 90.1961 | 85.1852 | 95.8333 | 97.7941 | 23 | 4 | 23 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | HG002compoundhet | het | 85.1501 | 95.7447 | 76.6667 | 93.8017 | 45 | 2 | 23 | 7 | 7 | 100.0000 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 86.7925 | 100.0000 | 76.6667 | 88.7218 | 23 | 0 | 23 | 7 | 7 | 100.0000 | |