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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
67501-67550 / 86044 show all | |||||||||||||||
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.4418 | 99.2664 | 97.6308 | 83.1720 | 9066 | 67 | 9066 | 220 | 10 | 4.5455 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.4418 | 99.2664 | 97.6308 | 83.1720 | 9066 | 67 | 9066 | 220 | 10 | 4.5455 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.0168 | 97.1706 | 98.8778 | 83.5902 | 2301 | 67 | 2379 | 27 | 22 | 81.4815 | |
| cchapple-custom | INDEL | D16_PLUS | HG002complexvar | het | 95.3100 | 93.9476 | 96.7125 | 59.3663 | 1040 | 67 | 1265 | 43 | 36 | 83.7209 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.1191 | 96.5339 | 97.7114 | 58.6675 | 1866 | 67 | 1964 | 46 | 42 | 91.3043 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 53.0778 | 74.8120 | 41.1290 | 71.0280 | 199 | 67 | 204 | 292 | 37 | 12.6712 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 35.9477 | 45.0820 | 29.8913 | 77.7240 | 55 | 67 | 55 | 129 | 117 | 90.6977 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 96.9476 | 94.0760 | 100.0000 | 38.5189 | 1064 | 67 | 1071 | 0 | 0 | ||
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 89.9729 | 83.2080 | 97.9351 | 51.7094 | 332 | 67 | 332 | 7 | 4 | 57.1429 | |
| ckim-isaac | INDEL | D16_PLUS | map_l100_m1_e0 | * | 35.2996 | 22.9885 | 76.0000 | 91.9094 | 20 | 67 | 19 | 6 | 3 | 50.0000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 92.6668 | 94.9700 | 90.4727 | 59.4634 | 1265 | 67 | 1244 | 131 | 94 | 71.7557 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 85.9048 | 76.5734 | 97.8261 | 53.6290 | 219 | 67 | 225 | 5 | 5 | 100.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.6846 | 96.8924 | 98.4899 | 76.8920 | 2089 | 67 | 2087 | 32 | 20 | 62.5000 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7592 | 99.5922 | 99.9267 | 60.1242 | 16362 | 67 | 16361 | 12 | 1 | 8.3333 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.7955 | 94.3933 | 99.3232 | 30.5115 | 1128 | 67 | 1174 | 8 | 8 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | HG002complexvar | het | 98.5354 | 97.1550 | 99.9556 | 58.9168 | 2288 | 67 | 2252 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.8839 | 96.6007 | 99.2017 | 74.1149 | 1904 | 67 | 1864 | 15 | 8 | 53.3333 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.8839 | 96.6007 | 99.2017 | 74.1149 | 1904 | 67 | 1864 | 15 | 8 | 53.3333 | |
| hfeng-pmm1 | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.1845 | 98.5711 | 99.8055 | 37.0083 | 4622 | 67 | 4619 | 9 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.6591 | 99.7822 | 99.5363 | 71.5494 | 30694 | 67 | 30694 | 143 | 139 | 97.2028 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 93.0441 | 87.4766 | 99.3684 | 70.7692 | 468 | 67 | 472 | 3 | 3 | 100.0000 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.8586 | 99.2554 | 94.5749 | 83.0098 | 9065 | 68 | 9065 | 520 | 22 | 4.2308 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.8586 | 99.2554 | 94.5749 | 83.0098 | 9065 | 68 | 9065 | 520 | 22 | 4.2308 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.1022 | 99.6257 | 98.5842 | 64.7104 | 18098 | 68 | 18104 | 260 | 243 | 93.4615 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.1022 | 99.6257 | 98.5842 | 64.7104 | 18098 | 68 | 18104 | 260 | 243 | 93.4615 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 91.6049 | 84.5103 | 100.0000 | 34.8074 | 371 | 68 | 457 | 0 | 0 | ||
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.3988 | 87.3134 | 98.1132 | 62.3817 | 468 | 68 | 468 | 9 | 7 | 77.7778 | |
| hfeng-pmm3 | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2056 | 98.5498 | 99.8702 | 37.4713 | 4621 | 68 | 4618 | 6 | 0 | 0.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 94.6034 | 94.8872 | 94.3212 | 81.3996 | 1262 | 68 | 1063 | 64 | 51 | 79.6875 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 91.6049 | 84.5103 | 100.0000 | 35.3276 | 371 | 68 | 454 | 0 | 0 | ||
| hfeng-pmm1 | INDEL | I6_15 | HG002complexvar | hetalt | 97.1405 | 94.4399 | 100.0000 | 56.4346 | 1155 | 68 | 1195 | 0 | 0 | ||
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 96.8247 | 99.2858 | 94.4828 | 49.5258 | 9453 | 68 | 9453 | 552 | 547 | 99.0942 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 63.1909 | 86.1224 | 49.9033 | 76.4142 | 422 | 68 | 258 | 259 | 240 | 92.6641 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4066 | 99.4274 | 99.3858 | 50.7439 | 11807 | 68 | 11812 | 73 | 23 | 31.5068 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.9744 | 98.1557 | 99.8069 | 48.5309 | 3619 | 68 | 3619 | 7 | 4 | 57.1429 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 92.9377 | 87.2897 | 99.3671 | 71.9361 | 467 | 68 | 471 | 3 | 3 | 100.0000 | |
| mlin-fermikit | INDEL | * | map_l100_m1_e0 | hetalt | 61.8722 | 45.1613 | 98.2143 | 85.2632 | 56 | 68 | 55 | 1 | 0 | 0.0000 | |
| qzeng-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.0837 | 98.5942 | 97.5785 | 75.0150 | 4769 | 68 | 4876 | 121 | 42 | 34.7107 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 88.9515 | 83.7321 | 94.8649 | 49.2455 | 350 | 68 | 351 | 19 | 19 | 100.0000 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 85.0366 | 86.0656 | 84.0319 | 62.7232 | 420 | 68 | 421 | 80 | 56 | 70.0000 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 92.9959 | 91.7476 | 94.2786 | 67.1300 | 756 | 68 | 758 | 46 | 41 | 89.1304 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.1847 | 98.9875 | 99.3827 | 46.8597 | 6648 | 68 | 6601 | 41 | 10 | 24.3902 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 84.5148 | 96.2617 | 75.3230 | 67.9780 | 1751 | 68 | 3556 | 1165 | 308 | 26.4378 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 84.5148 | 96.2617 | 75.3230 | 67.9780 | 1751 | 68 | 3556 | 1165 | 308 | 26.4378 | |
| jpowers-varprowl | INDEL | I6_15 | segdup | * | 68.0208 | 61.1429 | 76.6423 | 91.6157 | 107 | 68 | 105 | 32 | 32 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | HG002complexvar | het | 98.2042 | 97.1125 | 99.3207 | 49.9393 | 2287 | 68 | 2047 | 14 | 8 | 57.1429 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 94.9622 | 94.5860 | 95.3414 | 70.8976 | 1188 | 68 | 1187 | 58 | 6 | 10.3448 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.2459 | 94.4805 | 98.0785 | 59.8187 | 1164 | 68 | 1174 | 23 | 10 | 43.4783 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 91.1188 | 90.7483 | 91.4923 | 58.4348 | 667 | 68 | 656 | 61 | 59 | 96.7213 | |
| jpowers-varprowl | INDEL | * | map_l100_m0_e0 | het | 92.1663 | 93.3399 | 91.0220 | 88.6047 | 953 | 68 | 953 | 94 | 59 | 62.7660 | |