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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
20401-20450 / 86044 show all | |||||||||||||||
| ckim-dragen | INDEL | D16_PLUS | HG002compoundhet | hetalt | 96.4348 | 93.5685 | 99.4824 | 26.5399 | 1804 | 124 | 1922 | 10 | 10 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.4186 | 97.3773 | 99.4823 | 27.6981 | 1151 | 31 | 1153 | 6 | 6 | 100.0000 | |
| 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 | |
| hfeng-pmm3 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 93.8877 | 88.8889 | 99.4823 | 87.1394 | 1152 | 144 | 1153 | 6 | 1 | 16.6667 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.4541 | 88.1148 | 99.4822 | 29.4843 | 1505 | 203 | 1537 | 8 | 8 | 100.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.4541 | 88.1148 | 99.4822 | 29.4843 | 1505 | 203 | 1537 | 8 | 8 | 100.0000 | |
| ckim-dragen | SNP | tv | * | het | 99.7113 | 99.9417 | 99.4820 | 27.9772 | 591351 | 345 | 591544 | 3080 | 126 | 4.0909 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.2248 | 98.9691 | 99.4819 | 76.1286 | 384 | 4 | 384 | 2 | 1 | 50.0000 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.5795 | 95.7485 | 99.4819 | 26.9554 | 6869 | 305 | 6912 | 36 | 34 | 94.4444 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.2580 | 95.1314 | 99.4819 | 36.3636 | 1231 | 63 | 1344 | 7 | 7 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | map_l100_m2_e0 | homalt | 96.7204 | 94.1080 | 99.4819 | 84.5641 | 575 | 36 | 576 | 3 | 1 | 33.3333 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.2984 | 97.1429 | 99.4819 | 65.9011 | 170 | 5 | 192 | 1 | 1 | 100.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.2248 | 98.9691 | 99.4819 | 76.0248 | 384 | 4 | 384 | 2 | 1 | 50.0000 | |
| eyeh-varpipe | SNP | tv | map_l250_m0_e0 | homalt | 99.2221 | 98.9637 | 99.4819 | 94.6493 | 191 | 2 | 192 | 1 | 1 | 100.0000 | |
| mlin-fermikit | SNP | ti | HG002complexvar | hetalt | 96.0000 | 92.7536 | 99.4819 | 33.9041 | 192 | 15 | 192 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.7536 | 86.8778 | 99.4819 | 90.7523 | 192 | 29 | 192 | 1 | 0 | 0.0000 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.7061 | 99.9315 | 99.4818 | 75.9939 | 21884 | 15 | 21884 | 114 | 113 | 99.1228 | |
| gduggal-snapvard | SNP | * | map_l250_m2_e0 | homalt | 96.5678 | 93.8198 | 99.4817 | 88.0057 | 2520 | 166 | 2495 | 13 | 9 | 69.2308 | |
| ndellapenna-hhga | SNP | * | map_l150_m0_e0 | het | 98.0583 | 96.6751 | 99.4816 | 79.2753 | 7676 | 264 | 7676 | 40 | 17 | 42.5000 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.1693 | 98.8590 | 99.4815 | 88.1277 | 2686 | 31 | 2686 | 14 | 11 | 78.5714 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.4812 | 99.4812 | 99.4812 | 78.2296 | 1534 | 8 | 1534 | 8 | 5 | 62.5000 | |
| hfeng-pmm2 | SNP | * | map_l100_m2_e1 | * | 99.5245 | 99.5678 | 99.4812 | 67.6245 | 74414 | 323 | 74403 | 388 | 47 | 12.1134 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.7200 | 99.9599 | 99.4812 | 60.3982 | 2493 | 1 | 2493 | 13 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.5619 | 97.6596 | 99.4810 | 64.5181 | 459 | 11 | 575 | 3 | 3 | 100.0000 | |
| hfeng-pmm2 | SNP | * | map_l100_m1_e0 | * | 99.5195 | 99.5580 | 99.4810 | 66.0017 | 72083 | 320 | 72072 | 376 | 47 | 12.5000 | |
| hfeng-pmm2 | INDEL | * | segdup | homalt | 99.6360 | 99.7917 | 99.4808 | 93.2596 | 958 | 2 | 958 | 5 | 4 | 80.0000 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.9687 | 87.2567 | 99.4808 | 35.1295 | 2376 | 347 | 2491 | 13 | 13 | 100.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.9687 | 87.2567 | 99.4808 | 35.1295 | 2376 | 347 | 2491 | 13 | 13 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | * | * | 97.4037 | 95.4115 | 99.4808 | 44.5038 | 23684 | 1139 | 23374 | 122 | 76 | 62.2951 | |
| mlin-fermikit | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.1226 | 96.8012 | 99.4807 | 58.3241 | 34286 | 1133 | 34292 | 179 | 13 | 7.2626 | |
| asubramanian-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.1727 | 98.8666 | 99.4807 | 69.4042 | 3053 | 35 | 3065 | 16 | 11 | 68.7500 | |
| ghariani-varprowl | SNP | ti | HG002complexvar | homalt | 99.7133 | 99.9473 | 99.4805 | 19.5938 | 193359 | 102 | 193405 | 1010 | 705 | 69.8020 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.4334 | 99.3865 | 99.4804 | 79.7057 | 4212 | 26 | 4212 | 22 | 8 | 36.3636 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5663 | 99.6528 | 99.4801 | 69.4386 | 574 | 2 | 574 | 3 | 1 | 33.3333 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.2010 | 96.9543 | 99.4801 | 27.1465 | 1146 | 36 | 1148 | 6 | 6 | 100.0000 | |
| jli-custom | INDEL | I16_PLUS | HG002complexvar | het | 94.3784 | 89.7744 | 99.4801 | 60.9343 | 597 | 68 | 574 | 3 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | * | * | het | 99.5620 | 99.6441 | 99.4801 | 60.4341 | 193442 | 691 | 193072 | 1009 | 623 | 61.7443 | |
| gduggal-snapfb | SNP | tv | map_l100_m1_e0 | homalt | 98.3618 | 97.2686 | 99.4798 | 71.8035 | 8796 | 247 | 8797 | 46 | 9 | 19.5652 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.5453 | 99.6109 | 99.4798 | 78.1348 | 1536 | 6 | 1530 | 8 | 5 | 62.5000 | |
| egarrison-hhga | INDEL | * | segdup | homalt | 99.4792 | 99.4792 | 99.4792 | 93.5414 | 955 | 5 | 955 | 5 | 5 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 97.7138 | 96.0100 | 99.4792 | 68.9069 | 385 | 16 | 382 | 2 | 0 | 0.0000 | |
| qzeng-custom | SNP | ti | map_l100_m1_e0 | homalt | 87.7858 | 78.5523 | 99.4792 | 55.9352 | 14108 | 3852 | 13944 | 73 | 71 | 97.2603 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.6163 | 97.7687 | 99.4788 | 68.1894 | 3812 | 87 | 3817 | 20 | 13 | 65.0000 | |
| hfeng-pmm2 | SNP | * | map_l100_m2_e0 | * | 99.5209 | 99.5633 | 99.4785 | 67.6209 | 73641 | 323 | 73630 | 386 | 47 | 12.1762 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.1054 | 98.7352 | 99.4784 | 63.8767 | 13583 | 174 | 13541 | 71 | 56 | 78.8732 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.1054 | 98.7352 | 99.4784 | 63.8767 | 13583 | 174 | 13541 | 71 | 56 | 78.8732 | |
| cchapple-custom | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.5073 | 99.5362 | 99.4784 | 36.9220 | 3434 | 16 | 3433 | 18 | 5 | 27.7778 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.6669 | 97.8687 | 99.4782 | 72.3688 | 15245 | 332 | 15252 | 80 | 64 | 80.0000 | |
| ckim-dragen | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.7329 | 97.9988 | 99.4780 | 65.5490 | 3183 | 65 | 3240 | 17 | 5 | 29.4118 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.1564 | 96.8697 | 99.4778 | 38.9804 | 1145 | 37 | 1143 | 6 | 6 | 100.0000 | |