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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
76001-76050 / 86044 show all | |||||||||||||||
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.0003 | 99.8736 | 96.1960 | 56.0166 | 3161 | 4 | 3161 | 125 | 123 | 98.4000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.5741 | 90.8365 | 94.3795 | 65.5301 | 1933 | 195 | 2099 | 125 | 115 | 92.0000 | |
| cchapple-custom | INDEL | D1_5 | HG002compoundhet | het | 97.4821 | 96.0069 | 99.0033 | 65.2258 | 1659 | 69 | 12417 | 125 | 120 | 96.0000 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m2_e0 | het | 62.9373 | 64.4013 | 61.5385 | 92.2212 | 199 | 110 | 200 | 125 | 107 | 85.6000 | |
| ciseli-custom | INDEL | I1_5 | map_siren | homalt | 62.7683 | 50.4950 | 82.9235 | 77.4631 | 612 | 600 | 607 | 125 | 97 | 77.6000 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_51to200 | het | 11.0781 | 70.0000 | 6.0150 | 83.1858 | 7 | 3 | 8 | 125 | 1 | 0.8000 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.0161 | 99.9052 | 96.1971 | 56.0561 | 3162 | 3 | 3162 | 125 | 124 | 99.2000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 91.7362 | 85.8358 | 98.5078 | 31.2346 | 7975 | 1316 | 8252 | 125 | 116 | 92.8000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 91.7362 | 85.8358 | 98.5078 | 31.2346 | 7975 | 1316 | 8252 | 125 | 116 | 92.8000 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.5967 | 99.5697 | 99.6236 | 75.3470 | 33093 | 143 | 33087 | 125 | 100 | 80.0000 | |
| gduggal-snapfb | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.2467 | 99.6334 | 98.8630 | 62.3274 | 10871 | 40 | 10869 | 125 | 24 | 19.2000 | |
| gduggal-snapplat | SNP | ti | segdup | het | 98.8353 | 98.7116 | 98.9593 | 94.3052 | 11875 | 155 | 11886 | 125 | 11 | 8.8000 | |
| gduggal-snapvard | INDEL | I1_5 | map_l100_m0_e0 | * | 90.6741 | 94.8435 | 86.8559 | 87.7132 | 515 | 28 | 826 | 125 | 46 | 36.8000 | |
| gduggal-snapvard | INDEL | I6_15 | map_siren | het | 70.4297 | 84.6154 | 60.3175 | 79.3713 | 121 | 22 | 190 | 125 | 93 | 74.4000 | |
| ghariani-varprowl | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.8700 | 99.7128 | 98.0414 | 48.3490 | 6250 | 18 | 6257 | 125 | 13 | 10.4000 | |
| ghariani-varprowl | SNP | tv | map_l250_m0_e0 | het | 88.7470 | 97.2028 | 81.6446 | 94.8874 | 556 | 16 | 556 | 125 | 12 | 9.6000 | |
| jlack-gatk | INDEL | D1_5 | map_l125_m2_e0 | * | 94.2098 | 98.7752 | 90.0478 | 89.8856 | 1129 | 14 | 1131 | 125 | 6 | 4.8000 | |
| jlack-gatk | INDEL | D1_5 | map_l125_m2_e1 | het | 92.0567 | 99.0909 | 85.9551 | 90.9534 | 763 | 7 | 765 | 125 | 5 | 4.0000 | |
| hfeng-pmm2 | SNP | ti | map_l125_m0_e0 | het | 98.8238 | 99.1529 | 98.4969 | 78.6095 | 8193 | 70 | 8191 | 125 | 11 | 8.8000 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.9842 | 99.2753 | 98.6948 | 48.1764 | 9452 | 69 | 9452 | 125 | 120 | 96.0000 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.5858 | 97.9822 | 99.1968 | 53.1729 | 15442 | 318 | 15438 | 125 | 48 | 38.4000 | |
| jmaeng-gatk | SNP | * | map_l250_m2_e0 | het | 73.7629 | 59.8383 | 96.1336 | 96.8561 | 3108 | 2086 | 3108 | 125 | 9 | 7.2000 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.0161 | 99.9052 | 96.1971 | 55.9029 | 3162 | 3 | 3162 | 125 | 124 | 99.2000 | |
| anovak-vg | INDEL | * | map_l250_m2_e1 | * | 67.7462 | 69.9700 | 65.6593 | 96.4861 | 233 | 100 | 239 | 125 | 63 | 50.4000 | |
| asubramanian-gatk | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 0.0000 | 0.0000 | 80.4382 | 0 | 0 | 0 | 125 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 0.0000 | 0.0000 | 80.4382 | 0 | 0 | 0 | 125 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.6598 | 95.2648 | 96.0580 | 63.2518 | 3058 | 152 | 3046 | 125 | 116 | 92.8000 | |
| bgallagher-sentieon | SNP | tv | map_l125_m0_e0 | * | 98.6421 | 99.1555 | 98.1340 | 76.7581 | 6575 | 56 | 6574 | 125 | 19 | 15.2000 | |
| rpoplin-dv42 | SNP | tv | map_l100_m0_e0 | het | 98.5640 | 98.8507 | 98.2789 | 68.7061 | 7139 | 83 | 7138 | 125 | 50 | 40.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 82.1422 | 93.3333 | 73.3475 | 65.0261 | 308 | 22 | 344 | 125 | 113 | 90.4000 | |
| mlin-fermikit | INDEL | * | map_l100_m2_e1 | het | 74.8844 | 63.0388 | 92.2118 | 79.9750 | 1477 | 866 | 1480 | 125 | 73 | 58.4000 | |
| mlin-fermikit | INDEL | * | map_l150_m1_e0 | * | 64.0388 | 51.4948 | 84.6626 | 83.0385 | 689 | 649 | 690 | 125 | 100 | 80.0000 | |
| mlin-fermikit | INDEL | D1_5 | map_l100_m2_e1 | homalt | 79.7254 | 79.6774 | 79.7735 | 78.1084 | 494 | 126 | 493 | 125 | 119 | 95.2000 | |
| mlin-fermikit | INDEL | I1_5 | map_siren | * | 83.5106 | 74.6755 | 94.7168 | 75.2199 | 2244 | 761 | 2241 | 125 | 111 | 88.8000 | |
| mlin-fermikit | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.6888 | 99.4087 | 97.9793 | 56.5956 | 6052 | 36 | 6061 | 125 | 121 | 96.8000 | |
| mlin-fermikit | SNP | tv | segdup | * | 97.8523 | 97.1988 | 98.5147 | 87.3016 | 8293 | 239 | 8291 | 125 | 50 | 40.0000 | |
| ndellapenna-hhga | SNP | ti | map_siren | * | 99.5376 | 99.2028 | 99.8746 | 51.9628 | 99555 | 800 | 99557 | 125 | 60 | 48.0000 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 54.3940 | 75.8621 | 42.3963 | 99.8352 | 66 | 21 | 92 | 125 | 2 | 1.6000 | |
| qzeng-custom | INDEL | C16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 0.0000 | 0.0000 | 1.5625 | 65.4054 | 0 | 0 | 2 | 126 | 0 | 0.0000 | |
| mlin-fermikit | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.1773 | 99.3135 | 93.2331 | 71.4592 | 1736 | 12 | 1736 | 126 | 98 | 77.7778 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 84.4639 | 91.8699 | 78.1629 | 66.9151 | 452 | 40 | 451 | 126 | 119 | 94.4444 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 83.9484 | 89.1626 | 79.3103 | 79.1581 | 543 | 66 | 483 | 126 | 115 | 91.2698 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 77.6395 | 70.9330 | 85.7466 | 65.4687 | 593 | 243 | 758 | 126 | 94 | 74.6032 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 84.7851 | 78.2485 | 92.5134 | 54.4520 | 1644 | 457 | 1557 | 126 | 122 | 96.8254 | |
| jlack-gatk | INDEL | D16_PLUS | HG002compoundhet | het | 80.6922 | 97.5309 | 68.8119 | 59.1507 | 395 | 10 | 278 | 126 | 121 | 96.0317 | |
| jlack-gatk | INDEL | D1_5 | map_l125_m2_e1 | * | 94.2377 | 98.7900 | 90.0865 | 89.9406 | 1143 | 14 | 1145 | 126 | 6 | 4.7619 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 59.1795 | 86.4865 | 44.9782 | 68.8011 | 128 | 20 | 103 | 126 | 124 | 98.4127 | |
| hfeng-pmm3 | SNP | * | map_l150_m2_e0 | het | 99.2915 | 99.2103 | 99.3729 | 76.6202 | 19974 | 159 | 19968 | 126 | 13 | 10.3175 | |
| hfeng-pmm1 | SNP | * | map_l100_m1_e0 | het | 99.4173 | 99.1159 | 99.7205 | 63.9471 | 44958 | 401 | 44947 | 126 | 32 | 25.3968 | |
| ckim-vqsr | SNP | * | map_l125_m0_e0 | * | 64.0727 | 47.4439 | 98.6485 | 91.7531 | 9197 | 10188 | 9197 | 126 | 0 | 0.0000 | |