PrecisionFDA
Truth Challenge
Engage and improve DNA test results with our community challenges
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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
17401-17450 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.6415 | 99.7240 | 99.5592 | 34.7388 | 7227 | 20 | 7227 | 32 | 32 | 100.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.1507 | 97.5083 | 94.8304 | 50.6380 | 587 | 15 | 587 | 32 | 31 | 96.8750 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.9107 | 94.4420 | 99.5119 | 50.8251 | 6525 | 384 | 6524 | 32 | 25 | 78.1250 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | het | 78.0662 | 93.4911 | 67.0103 | 81.9367 | 158 | 11 | 65 | 32 | 32 | 100.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | HG002complexvar | * | 99.1842 | 98.4778 | 99.9009 | 57.1533 | 32217 | 498 | 32268 | 32 | 21 | 65.6250 | |
| hfeng-pmm2 | INDEL | D6_15 | HG002complexvar | * | 96.9573 | 94.6624 | 99.3663 | 56.8597 | 5019 | 283 | 5018 | 32 | 26 | 81.2500 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.0941 | 94.7894 | 99.5137 | 51.5749 | 6549 | 360 | 6548 | 32 | 28 | 87.5000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.5660 | 94.2153 | 99.0370 | 52.3174 | 3290 | 202 | 3291 | 32 | 26 | 81.2500 | |
| hfeng-pmm2 | SNP | * | HG002compoundhet | * | 97.7436 | 95.7052 | 99.8707 | 39.1925 | 24713 | 1109 | 24713 | 32 | 14 | 43.7500 | |
| ckim-vqsr | INDEL | D1_5 | map_l150_m2_e1 | * | 95.8895 | 95.8869 | 95.8922 | 92.8591 | 746 | 32 | 747 | 32 | 5 | 15.6250 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.7063 | 95.9630 | 99.5141 | 33.0555 | 6537 | 275 | 6554 | 32 | 32 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.2766 | 99.2360 | 97.3356 | 73.4116 | 1169 | 9 | 1169 | 32 | 32 | 100.0000 | |
| ckim-isaac | INDEL | I16_PLUS | HG002complexvar | homalt | 50.1099 | 36.8932 | 78.0822 | 66.5138 | 114 | 195 | 114 | 32 | 13 | 40.6250 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 91.2624 | 91.6185 | 90.9091 | 64.6231 | 317 | 29 | 320 | 32 | 16 | 50.0000 | |
| ckim-isaac | INDEL | I1_5 | map_siren | het | 91.7548 | 86.3772 | 97.8466 | 80.2288 | 1452 | 229 | 1454 | 32 | 7 | 21.8750 | |
| egarrison-hhga | INDEL | I6_15 | HG002complexvar | het | 96.7518 | 94.9894 | 98.5809 | 56.5929 | 2237 | 118 | 2223 | 32 | 9 | 28.1250 | |
| egarrison-hhga | SNP | * | map_l150_m0_e0 | het | 98.7297 | 97.8841 | 99.5900 | 80.6088 | 7772 | 168 | 7772 | 32 | 11 | 34.3750 | |
| egarrison-hhga | SNP | * | map_l250_m1_e0 | * | 98.6376 | 97.7430 | 99.5487 | 87.7148 | 7059 | 163 | 7059 | 32 | 15 | 46.8750 | |
| egarrison-hhga | INDEL | * | map_l125_m2_e1 | het | 97.7684 | 97.7983 | 97.7385 | 87.3174 | 1377 | 31 | 1383 | 32 | 11 | 34.3750 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 95.2997 | 91.1929 | 99.7939 | 58.4384 | 15480 | 1495 | 15495 | 32 | 23 | 71.8750 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 95.2997 | 91.1929 | 99.7939 | 58.4384 | 15480 | 1495 | 15495 | 32 | 23 | 71.8750 | |
| ckim-isaac | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.9529 | 91.4315 | 96.6173 | 65.9835 | 907 | 85 | 914 | 32 | 1 | 3.1250 | |
| 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 | SNP | ti | map_l250_m1_e0 | * | 58.4497 | 41.5811 | 98.3471 | 96.9616 | 1904 | 2675 | 1904 | 32 | 0 | 0.0000 | |
| ckim-vqsr | SNP | ti | map_l250_m1_e0 | het | 68.5076 | 52.6617 | 97.9937 | 97.0232 | 1563 | 1405 | 1563 | 32 | 0 | 0.0000 | |
| ckim-vqsr | SNP | tv | map_l250_m2_e1 | * | 58.7446 | 42.0439 | 97.4563 | 97.2616 | 1226 | 1690 | 1226 | 32 | 0 | 0.0000 | |
| ckim-vqsr | SNP | tv | map_l250_m2_e1 | het | 68.8772 | 53.3842 | 97.0398 | 97.2338 | 1049 | 916 | 1049 | 32 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | * | homalt | 98.8856 | 99.6454 | 98.1374 | 70.5317 | 1686 | 6 | 1686 | 32 | 23 | 71.8750 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.4945 | 99.5196 | 97.4902 | 74.7924 | 1243 | 6 | 1243 | 32 | 23 | 71.8750 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.4945 | 99.5196 | 97.4902 | 74.7924 | 1243 | 6 | 1243 | 32 | 23 | 71.8750 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.0365 | 94.6613 | 99.5340 | 28.2145 | 6791 | 383 | 6835 | 32 | 30 | 93.7500 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 95.5603 | 97.8355 | 93.3884 | 59.3960 | 452 | 10 | 452 | 32 | 19 | 59.3750 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 73.7836 | 58.7520 | 99.1512 | 28.6930 | 4011 | 2816 | 3738 | 32 | 26 | 81.2500 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 62.7001 | 46.0184 | 98.3531 | 38.3761 | 2196 | 2576 | 1911 | 32 | 29 | 90.6250 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 94.8882 | 100.0000 | 90.2736 | 37.3333 | 59 | 0 | 297 | 32 | 8 | 25.0000 | |
| qzeng-custom | INDEL | I6_15 | map_l125_m1_e0 | het | 61.0762 | 63.3333 | 58.9744 | 88.3582 | 19 | 11 | 46 | 32 | 3 | 9.3750 | |
| qzeng-custom | INDEL | I6_15 | map_l125_m2_e0 | het | 61.6216 | 63.3333 | 60.0000 | 88.9503 | 19 | 11 | 48 | 32 | 3 | 9.3750 | |
| qzeng-custom | SNP | ti | map_l150_m1_e0 | homalt | 79.2986 | 65.9888 | 99.3340 | 70.0903 | 4835 | 2492 | 4773 | 32 | 32 | 100.0000 | |
| qzeng-custom | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.7317 | 99.7821 | 99.6812 | 62.4851 | 10075 | 22 | 10007 | 32 | 21 | 65.6250 | |
| mlin-fermikit | INDEL | D6_15 | map_l100_m1_e0 | het | 75.2952 | 75.3968 | 75.1938 | 79.7488 | 95 | 31 | 97 | 32 | 23 | 71.8750 | |
| mlin-fermikit | INDEL | D6_15 | map_l100_m2_e0 | het | 76.2275 | 76.3359 | 76.1194 | 81.1001 | 100 | 31 | 102 | 32 | 23 | 71.8750 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 80.3677 | 72.6804 | 89.8734 | 76.7647 | 282 | 106 | 284 | 32 | 30 | 93.7500 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 89.9930 | 98.6928 | 82.7027 | 78.7356 | 151 | 2 | 153 | 32 | 31 | 96.8750 | |
| mlin-fermikit | SNP | * | map_l250_m1_e0 | het | 41.8044 | 26.6036 | 97.5328 | 80.1621 | 1265 | 3490 | 1265 | 32 | 1 | 3.1250 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 77.7614 | 75.7576 | 79.8742 | 91.5962 | 125 | 40 | 127 | 32 | 21 | 65.6250 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 96.3029 | 95.1201 | 97.5155 | 59.3306 | 1267 | 65 | 1256 | 32 | 19 | 59.3750 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 94.1695 | 90.0530 | 98.6804 | 37.0620 | 2381 | 263 | 2393 | 32 | 28 | 87.5000 | |
| ndellapenna-hhga | SNP | * | map_l250_m2_e1 | het | 97.6025 | 95.8967 | 99.3701 | 87.9415 | 5048 | 216 | 5048 | 32 | 14 | 43.7500 | |
| ndellapenna-hhga | SNP | tv | map_l150_m2_e0 | het | 98.5727 | 97.6145 | 99.5500 | 73.8403 | 7079 | 173 | 7079 | 32 | 13 | 40.6250 | |
| ndellapenna-hhga | SNP | tv | map_l150_m2_e1 | het | 98.5776 | 97.6184 | 99.5559 | 73.8732 | 7173 | 175 | 7173 | 32 | 13 | 40.6250 | |