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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
28251-28300 / 86044 show all | |||||||||||||||
| ciseli-custom | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 96.7002 | 99.5423 | 94.0159 | 40.8529 | 1305 | 6 | 1304 | 83 | 22 | 26.5060 | |
| cchapple-custom | SNP | ti | map_l150_m2_e1 | * | 96.8601 | 96.7186 | 97.0020 | 78.5397 | 20043 | 680 | 20028 | 619 | 164 | 26.4943 | |
| ciseli-custom | SNP | ti | map_l125_m2_e1 | * | 82.1337 | 78.2100 | 86.4719 | 77.2907 | 23908 | 6661 | 23887 | 3737 | 990 | 26.4918 | |
| cchapple-custom | SNP | ti | map_l250_m2_e0 | het | 95.5856 | 95.7898 | 95.3823 | 91.6456 | 3117 | 137 | 3119 | 151 | 40 | 26.4901 | |
| gduggal-snapfb | INDEL | * | map_l100_m2_e1 | * | 93.3057 | 90.9478 | 95.7892 | 85.0002 | 3416 | 340 | 3435 | 151 | 40 | 26.4901 | |
| gduggal-bwavard | INDEL | D1_5 | map_l100_m2_e1 | het | 92.4908 | 98.8170 | 86.9258 | 89.0233 | 1253 | 15 | 1230 | 185 | 49 | 26.4865 | |
| eyeh-varpipe | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.4962 | 98.9130 | 94.1946 | 61.4016 | 1729 | 19 | 1655 | 102 | 27 | 26.4706 | |
| ndellapenna-hhga | INDEL | * | map_l125_m1_e0 | het | 97.3464 | 97.2285 | 97.4646 | 85.8260 | 1298 | 37 | 1307 | 34 | 9 | 26.4706 | |
| ndellapenna-hhga | INDEL | * | map_l125_m2_e0 | het | 97.4161 | 97.2682 | 97.5645 | 86.6946 | 1353 | 38 | 1362 | 34 | 9 | 26.4706 | |
| ndellapenna-hhga | INDEL | * | map_l125_m2_e1 | het | 97.4472 | 97.3011 | 97.5938 | 86.8092 | 1370 | 38 | 1379 | 34 | 9 | 26.4706 | |
| hfeng-pmm1 | SNP | tv | map_l125_m0_e0 | het | 98.9058 | 98.5912 | 99.2223 | 76.3803 | 4339 | 62 | 4338 | 34 | 9 | 26.4706 | |
| hfeng-pmm1 | SNP | * | map_l100_m0_e0 | het | 99.2124 | 98.9106 | 99.5159 | 69.6159 | 20974 | 231 | 20970 | 102 | 27 | 26.4706 | |
| jlack-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.6624 | 99.7383 | 99.5867 | 60.0529 | 16386 | 43 | 16385 | 68 | 18 | 26.4706 | |
| cchapple-custom | SNP | ti | map_l150_m2_e0 | het | 96.0807 | 96.8481 | 95.3254 | 81.6490 | 12475 | 406 | 12480 | 612 | 162 | 26.4706 | |
| gduggal-snapvard | SNP | tv | func_cds | het | 98.7765 | 98.8333 | 98.7199 | 41.1608 | 2626 | 31 | 2622 | 34 | 9 | 26.4706 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 83.3290 | 92.2710 | 75.9669 | 53.2043 | 6196 | 519 | 6246 | 1976 | 523 | 26.4676 | |
| cchapple-custom | SNP | ti | map_l150_m1_e0 | het | 95.9987 | 96.7583 | 95.2510 | 80.3175 | 11969 | 401 | 11974 | 597 | 158 | 26.4657 | |
| anovak-vg | INDEL | * | map_l125_m1_e0 | het | 70.6166 | 68.5393 | 72.8236 | 88.9382 | 915 | 420 | 962 | 359 | 95 | 26.4624 | |
| gduggal-bwaplat | SNP | ti | map_siren | * | 90.8656 | 83.6301 | 99.4716 | 68.7099 | 83927 | 16428 | 83958 | 446 | 118 | 26.4574 | |
| 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 | |
| jlack-gatk | INDEL | I1_5 | * | het | 99.1970 | 99.4952 | 98.9006 | 61.6913 | 78642 | 399 | 78625 | 874 | 231 | 26.4302 | |
| ckim-isaac | SNP | * | map_l150_m2_e1 | * | 70.6272 | 54.6818 | 99.7000 | 78.0346 | 17613 | 14597 | 17614 | 53 | 14 | 26.4151 | |
| ciseli-custom | SNP | * | map_l100_m2_e1 | * | 85.2411 | 82.0102 | 88.7370 | 71.8319 | 61292 | 13445 | 61099 | 7755 | 2048 | 26.4088 | |
| ciseli-custom | SNP | * | map_l100_m2_e0 | * | 85.1771 | 81.9318 | 88.6900 | 71.8362 | 60600 | 13364 | 60413 | 7704 | 2033 | 26.3889 | |
| gduggal-bwafb | SNP | * | map_l250_m2_e0 | * | 97.8174 | 97.4762 | 98.1609 | 89.8565 | 7686 | 199 | 7686 | 144 | 38 | 26.3889 | |
| hfeng-pmm1 | SNP | * | HG002complexvar | het | 99.8138 | 99.6436 | 99.9845 | 18.0286 | 463838 | 1659 | 463708 | 72 | 19 | 26.3889 | |
| cchapple-custom | SNP | ti | map_l150_m2_e1 | het | 96.0905 | 96.8652 | 95.3281 | 81.7323 | 12607 | 408 | 12610 | 618 | 163 | 26.3754 | |
| cchapple-custom | INDEL | C1_5 | * | het | 91.7367 | 88.8889 | 94.7731 | 92.2595 | 8 | 1 | 1650 | 91 | 24 | 26.3736 | |
| gduggal-bwavard | INDEL | D1_5 | map_l100_m1_e0 | het | 92.3518 | 98.9247 | 86.5979 | 88.3812 | 1196 | 13 | 1176 | 182 | 48 | 26.3736 | |
| gduggal-bwavard | INDEL | D1_5 | map_l100_m2_e0 | het | 92.5331 | 98.8057 | 87.0093 | 88.9275 | 1241 | 15 | 1219 | 182 | 48 | 26.3736 | |
| gduggal-bwafb | SNP | * | map_l150_m1_e0 | * | 98.6339 | 98.5952 | 98.6726 | 76.5153 | 30179 | 430 | 30179 | 406 | 107 | 26.3547 | |
| gduggal-snapfb | INDEL | I1_5 | HG002complexvar | het | 93.2070 | 95.4203 | 91.0940 | 55.8992 | 17356 | 833 | 18135 | 1773 | 467 | 26.3395 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 53.7099 | 42.3437 | 73.4172 | 63.2026 | 2851 | 3882 | 3850 | 1394 | 367 | 26.3271 | |
| cchapple-custom | INDEL | I1_5 | map_l100_m0_e0 | * | 96.5832 | 96.6851 | 96.4815 | 84.1223 | 525 | 18 | 521 | 19 | 5 | 26.3158 | |
| ckim-dragen | INDEL | I1_5 | map_l100_m0_e0 | * | 96.7796 | 97.0534 | 96.5074 | 85.5741 | 527 | 16 | 525 | 19 | 5 | 26.3158 | |
| ckim-dragen | INDEL | I1_5 | map_l150_m1_e0 | * | 95.4183 | 94.6640 | 96.1847 | 89.6830 | 479 | 27 | 479 | 19 | 5 | 26.3158 | |
| ckim-dragen | INDEL | I1_5 | map_l150_m2_e0 | * | 95.5340 | 94.7977 | 96.2818 | 90.8259 | 492 | 27 | 492 | 19 | 5 | 26.3158 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 92.8267 | 87.4867 | 98.8609 | 64.0750 | 1650 | 236 | 1649 | 19 | 5 | 26.3158 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 87.3112 | 81.6384 | 93.8312 | 58.9880 | 289 | 65 | 289 | 19 | 5 | 26.3158 | |
| ckim-vqsr | INDEL | I1_5 | map_siren | het | 97.0962 | 95.4194 | 98.8329 | 85.9291 | 1604 | 77 | 1609 | 19 | 5 | 26.3158 | |
| egarrison-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.6035 | 99.5149 | 99.6923 | 54.6489 | 6154 | 30 | 6156 | 19 | 5 | 26.3158 | |
| anovak-vg | INDEL | I6_15 | map_l100_m1_e0 | het | 45.4208 | 35.5932 | 62.7451 | 82.9431 | 21 | 38 | 32 | 19 | 5 | 26.3158 | |
| anovak-vg | INDEL | I6_15 | map_l100_m2_e0 | het | 44.6377 | 34.4262 | 63.4615 | 83.5962 | 21 | 40 | 33 | 19 | 5 | 26.3158 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.4610 | 97.3722 | 99.5745 | 76.8854 | 8893 | 240 | 8893 | 38 | 10 | 26.3158 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.4610 | 97.3722 | 99.5745 | 76.8854 | 8893 | 240 | 8893 | 38 | 10 | 26.3158 | |
| astatham-gatk | SNP | tv | map_l100_m2_e1 | het | 86.7191 | 76.7348 | 99.6902 | 76.6919 | 12230 | 3708 | 12226 | 38 | 10 | 26.3158 | |
| bgallagher-sentieon | INDEL | I1_5 | map_siren | * | 99.3016 | 99.2346 | 99.3688 | 80.4976 | 2982 | 23 | 2991 | 19 | 5 | 26.3158 | |
| hfeng-pmm1 | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1947 | 98.5087 | 99.8903 | 63.5767 | 17306 | 262 | 17297 | 19 | 5 | 26.3158 | |
| hfeng-pmm3 | INDEL | * | map_l125_m0_e0 | * | 98.0793 | 98.2993 | 97.8604 | 87.9462 | 867 | 15 | 869 | 19 | 5 | 26.3158 | |