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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
66801-66850 / 86044 show all | |||||||||||||||
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 93.8925 | 88.9660 | 99.3966 | 87.1383 | 1153 | 143 | 1153 | 7 | 4 | 57.1429 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.5907 | 97.6311 | 99.5693 | 27.5733 | 1154 | 28 | 1156 | 5 | 5 | 100.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | * | homalt | 80.8672 | 68.2033 | 99.3062 | 53.9537 | 1154 | 538 | 1145 | 8 | 7 | 87.5000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 92.9921 | 92.3939 | 93.5981 | 64.4892 | 1154 | 95 | 1155 | 79 | 58 | 73.4177 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 92.9921 | 92.3939 | 93.5981 | 64.4892 | 1154 | 95 | 1155 | 79 | 58 | 73.4177 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 90.2679 | 97.6311 | 83.9375 | 60.3774 | 1154 | 28 | 1181 | 226 | 172 | 76.1062 | |
| ckim-dragen | INDEL | D1_5 | map_siren | homalt | 99.2693 | 98.8870 | 99.6546 | 81.5458 | 1155 | 13 | 1154 | 4 | 3 | 75.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | HG002complexvar | hetalt | 97.1405 | 94.4399 | 100.0000 | 56.4346 | 1155 | 68 | 1195 | 0 | 0 | ||
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 92.5879 | 91.9586 | 93.2258 | 73.3046 | 1155 | 101 | 1156 | 84 | 55 | 65.4762 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.6342 | 97.8003 | 99.4823 | 38.0876 | 1156 | 26 | 1153 | 6 | 6 | 100.0000 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 91.0595 | 83.5864 | 100.0000 | 65.1965 | 1156 | 227 | 1160 | 0 | 0 | ||
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 90.7973 | 86.7868 | 95.1964 | 28.2652 | 1156 | 176 | 5767 | 291 | 281 | 96.5636 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 83.0162 | 71.4904 | 98.9726 | 45.1128 | 1156 | 461 | 1156 | 12 | 11 | 91.6667 | |
| asubramanian-gatk | INDEL | * | map_l125_m2_e0 | het | 88.2149 | 83.1057 | 93.9935 | 92.2139 | 1156 | 235 | 1158 | 74 | 7 | 9.4595 | |
| jlack-gatk | INDEL | D1_5 | map_siren | homalt | 99.3983 | 98.9726 | 99.8277 | 79.2900 | 1156 | 12 | 1159 | 2 | 2 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.6785 | 97.8849 | 99.4850 | 27.6398 | 1157 | 25 | 1159 | 6 | 6 | 100.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.6785 | 97.8849 | 99.4850 | 27.6398 | 1157 | 25 | 1159 | 6 | 6 | 100.0000 | |
| rpoplin-dv42 | INDEL | D6_15 | HG002complexvar | homalt | 99.3561 | 98.9735 | 99.7416 | 60.7903 | 1157 | 12 | 1158 | 3 | 2 | 66.6667 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.0155 | 98.2173 | 99.8268 | 66.0394 | 1157 | 21 | 1153 | 2 | 1 | 50.0000 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.6785 | 97.8849 | 99.4850 | 27.4595 | 1157 | 25 | 1159 | 6 | 6 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | map_siren | homalt | 99.3571 | 99.1438 | 99.5712 | 81.3141 | 1158 | 10 | 1161 | 5 | 5 | 100.0000 | |
| jpowers-varprowl | INDEL | D1_5 | map_l100_m1_e0 | het | 94.3765 | 95.7816 | 93.0120 | 85.5736 | 1158 | 51 | 1158 | 87 | 61 | 70.1149 | |
| gduggal-bwafb | INDEL | D1_5 | map_siren | homalt | 98.8048 | 99.1438 | 98.4681 | 82.4522 | 1158 | 10 | 1157 | 18 | 12 | 66.6667 | |
| hfeng-pmm2 | INDEL | I6_15 | HG002complexvar | hetalt | 97.2701 | 94.6852 | 100.0000 | 56.4680 | 1158 | 65 | 1198 | 0 | 0 | ||
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.6797 | 97.9695 | 99.4002 | 28.6675 | 1158 | 24 | 1160 | 7 | 6 | 85.7143 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.8667 | 97.9695 | 90.0936 | 51.1619 | 1158 | 24 | 1155 | 127 | 117 | 92.1260 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 96.2980 | 98.3871 | 94.2957 | 66.7441 | 1159 | 19 | 1620 | 98 | 95 | 96.9388 | |
| astatham-gatk | INDEL | I6_15 | HG002complexvar | hetalt | 97.3132 | 94.7670 | 100.0000 | 56.0117 | 1159 | 64 | 1200 | 0 | 0 | ||
| ghariani-varprowl | INDEL | * | map_l100_m2_e0 | homalt | 94.8057 | 91.9112 | 97.8885 | 80.1409 | 1159 | 102 | 1159 | 25 | 8 | 32.0000 | |
| jmaeng-gatk | SNP | tv | map_l250_m2_e1 | het | 72.8186 | 59.0331 | 95.0041 | 96.9764 | 1160 | 805 | 1160 | 61 | 1 | 1.6393 | |
| jpowers-varprowl | INDEL | * | map_l100_m2_e0 | homalt | 95.3164 | 91.9905 | 98.8917 | 79.6672 | 1160 | 101 | 1160 | 13 | 8 | 61.5385 | |
| cchapple-custom | INDEL | D6_15 | HG002complexvar | homalt | 98.6845 | 99.2301 | 98.1449 | 51.7682 | 1160 | 9 | 1111 | 21 | 21 | 100.0000 | |
| dgrover-gatk | INDEL | I6_15 | HG002complexvar | hetalt | 97.3563 | 94.8487 | 100.0000 | 56.1679 | 1160 | 63 | 1201 | 0 | 0 | ||
| mlin-fermikit | SNP | * | map_l250_m2_e0 | homalt | 52.9680 | 43.1869 | 68.4770 | 75.7965 | 1160 | 1526 | 1160 | 534 | 494 | 92.5094 | |
| ndellapenna-hhga | INDEL | D1_5 | map_siren | homalt | 99.1884 | 99.4007 | 98.9770 | 79.1578 | 1161 | 7 | 1161 | 12 | 11 | 91.6667 | |
| ckim-gatk | INDEL | D1_5 | map_siren | homalt | 99.4864 | 99.4007 | 99.5723 | 81.4444 | 1161 | 7 | 1164 | 5 | 4 | 80.0000 | |
| ckim-gatk | SNP | tv | map_l125_m0_e0 | homalt | 68.6373 | 52.2738 | 99.9139 | 81.5935 | 1161 | 1060 | 1161 | 1 | 0 | 0.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | map_siren | homalt | 99.5289 | 99.4007 | 99.6575 | 79.9209 | 1161 | 7 | 1164 | 4 | 4 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.1881 | 98.5569 | 99.8274 | 68.1681 | 1161 | 17 | 1157 | 2 | 1 | 50.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 85.9953 | 87.2932 | 84.7354 | 73.4127 | 1161 | 169 | 1249 | 225 | 212 | 94.2222 | |
| ckim-vqsr | INDEL | D1_5 | map_siren | homalt | 99.4864 | 99.4007 | 99.5723 | 81.4444 | 1161 | 7 | 1164 | 5 | 4 | 80.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 99.1037 | 98.2234 | 100.0000 | 28.2542 | 1161 | 21 | 1163 | 0 | 0 | ||
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.8510 | 98.2234 | 99.4867 | 27.7056 | 1161 | 21 | 1163 | 6 | 6 | 100.0000 | |
| asubramanian-gatk | INDEL | D6_15 | HG002complexvar | homalt | 99.0619 | 99.3157 | 98.8095 | 62.8201 | 1161 | 8 | 1162 | 14 | 14 | 100.0000 | |
| anovak-vg | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.6046 | 94.9346 | 96.2841 | 59.3488 | 1162 | 62 | 1166 | 45 | 34 | 75.5556 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 86.5974 | 85.2531 | 87.9848 | 76.9339 | 1162 | 201 | 1157 | 158 | 144 | 91.1392 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 99.1468 | 98.3080 | 100.0000 | 27.7467 | 1162 | 20 | 1164 | 0 | 0 | ||
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.1000 | 98.3080 | 92.0949 | 58.3471 | 1162 | 20 | 1165 | 100 | 99 | 99.0000 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.6837 | 98.6418 | 98.7256 | 72.6343 | 1162 | 16 | 1162 | 15 | 15 | 100.0000 | |
| jli-custom | INDEL | D1_5 | map_siren | homalt | 99.5293 | 99.4863 | 99.5723 | 80.0137 | 1162 | 6 | 1164 | 5 | 5 | 100.0000 | |