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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
57651-57700 / 86044 show all | |||||||||||||||
| ckim-vqsr | SNP | * | map_l100_m0_e0 | * | 70.1414 | 54.3558 | 98.8482 | 87.4638 | 17851 | 14990 | 17850 | 208 | 2 | 0.9615 | |
| ckim-vqsr | SNP | * | map_l100_m0_e0 | het | 80.5244 | 68.0594 | 98.5791 | 88.0545 | 14432 | 6773 | 14431 | 208 | 2 | 0.9615 | |
| ckim-vqsr | SNP | * | map_l125_m1_e0 | homalt | 45.7370 | 29.6539 | 99.9402 | 85.9137 | 5013 | 11892 | 5013 | 3 | 2 | 66.6667 | |
| ckim-vqsr | SNP | * | map_l125_m2_e0 | homalt | 47.0112 | 30.7338 | 99.9439 | 86.8214 | 5340 | 12035 | 5340 | 3 | 2 | 66.6667 | |
| ckim-vqsr | SNP | * | map_l125_m2_e1 | homalt | 47.2295 | 30.9206 | 99.9447 | 86.7543 | 5421 | 12111 | 5421 | 3 | 2 | 66.6667 | |
| ckim-vqsr | SNP | * | map_l150_m1_e0 | * | 65.6433 | 49.1783 | 98.6821 | 91.1099 | 15053 | 15556 | 15050 | 201 | 2 | 0.9950 | |
| ckim-vqsr | SNP | * | map_l150_m2_e0 | het | 78.1444 | 64.8041 | 98.4007 | 91.6936 | 13047 | 7086 | 13044 | 212 | 2 | 0.9434 | |
| ckim-vqsr | SNP | * | map_l150_m2_e1 | het | 78.2150 | 64.9020 | 98.3989 | 91.7124 | 13216 | 7147 | 13213 | 215 | 2 | 0.9302 | |
| ckim-vqsr | SNP | * | tech_badpromoters | * | 98.4026 | 98.0892 | 98.7179 | 49.0196 | 154 | 3 | 154 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | * | tech_badpromoters | homalt | 98.1366 | 98.7500 | 97.5309 | 47.0588 | 79 | 1 | 79 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | ti | * | hetalt | 97.3638 | 95.1890 | 99.6403 | 53.2773 | 554 | 28 | 554 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.2066 | 99.0169 | 99.3969 | 52.5864 | 1813 | 18 | 1813 | 11 | 2 | 18.1818 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.7260 | 99.8005 | 99.6515 | 49.5605 | 4003 | 8 | 4003 | 14 | 2 | 14.2857 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6469 | 99.8428 | 99.4518 | 52.6335 | 2540 | 4 | 2540 | 14 | 2 | 14.2857 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.7064 | 96.3801 | 99.0698 | 91.1230 | 213 | 8 | 213 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 97.6744 | 96.7105 | 98.6577 | 91.3873 | 147 | 5 | 147 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.3604 | 98.8187 | 99.9081 | 42.3617 | 2175 | 26 | 2175 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4469 | 98.9759 | 99.9224 | 33.5509 | 3866 | 40 | 3865 | 3 | 2 | 66.6667 | |
| ckim-vqsr | SNP | ti | map_l125_m1_e0 | het | 81.0388 | 68.6740 | 98.8337 | 87.9988 | 12544 | 5722 | 12542 | 148 | 2 | 1.3514 | |
| ckim-vqsr | SNP | ti | map_l125_m1_e0 | homalt | 46.9945 | 30.7198 | 99.9411 | 85.1863 | 3393 | 7652 | 3393 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_l125_m2_e0 | homalt | 48.2602 | 31.8102 | 99.9447 | 86.1579 | 3613 | 7745 | 3613 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_l125_m2_e1 | homalt | 48.4929 | 32.0126 | 99.9455 | 86.0864 | 3668 | 7790 | 3668 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_l150_m1_e0 | * | 65.9997 | 49.5333 | 98.8657 | 90.7313 | 9764 | 9948 | 9762 | 112 | 2 | 1.7857 | |
| ckim-vqsr | SNP | ti | map_l150_m2_e0 | het | 78.3377 | 64.9794 | 98.6095 | 91.3777 | 8370 | 4511 | 8368 | 118 | 2 | 1.6949 | |
| ckim-vqsr | SNP | ti | map_l150_m2_e1 | het | 78.3815 | 65.0480 | 98.5906 | 91.4083 | 8466 | 4549 | 8464 | 121 | 2 | 1.6529 | |
| ckim-vqsr | SNP | tv | * | hetalt | 97.4148 | 95.1780 | 99.7593 | 54.6645 | 829 | 42 | 829 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.1719 | 98.7467 | 99.6008 | 69.5995 | 1497 | 19 | 1497 | 6 | 2 | 33.3333 | |
| ckim-vqsr | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.8343 | 98.2863 | 99.3884 | 71.8022 | 975 | 17 | 975 | 6 | 2 | 33.3333 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 96.9512 | 96.3636 | 97.5460 | 90.9595 | 159 | 6 | 159 | 4 | 2 | 50.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.3563 | 95.9677 | 96.7480 | 90.6535 | 119 | 5 | 119 | 4 | 2 | 50.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.3400 | 98.7394 | 99.9479 | 59.7020 | 3838 | 49 | 3838 | 2 | 2 | 100.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7534 | 99.6812 | 99.8257 | 39.7409 | 3439 | 11 | 3436 | 6 | 2 | 33.3333 | |
| ckim-vqsr | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.8363 | 99.9532 | 99.7196 | 42.4576 | 2137 | 1 | 2134 | 6 | 2 | 33.3333 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 90.5425 | 92.0000 | 89.1304 | 86.4706 | 46 | 4 | 41 | 5 | 2 | 40.0000 | |
| dgrover-gatk | INDEL | * | map_l125_m0_e0 | het | 97.2014 | 97.4446 | 96.9595 | 91.3349 | 572 | 15 | 574 | 18 | 2 | 11.1111 | |
| dgrover-gatk | INDEL | * | map_l250_m0_e0 | * | 90.1235 | 93.5897 | 86.9048 | 97.9749 | 73 | 5 | 73 | 11 | 2 | 18.1818 | |
| dgrover-gatk | INDEL | * | map_l250_m1_e0 | homalt | 96.2963 | 95.4128 | 97.1963 | 95.1496 | 104 | 5 | 104 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | * | map_l250_m2_e0 | homalt | 96.4912 | 95.6522 | 97.3451 | 95.5424 | 110 | 5 | 110 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | * | map_l250_m2_e1 | homalt | 96.5217 | 95.6897 | 97.3684 | 95.6322 | 111 | 5 | 111 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | * | segdup | het | 99.0133 | 99.2497 | 98.7780 | 95.2951 | 1455 | 11 | 1455 | 18 | 2 | 11.1111 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.2903 | 98.1771 | 96.4194 | 86.0507 | 377 | 7 | 377 | 14 | 2 | 14.2857 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.3521 | 100.0000 | 98.7124 | 71.6889 | 230 | 0 | 230 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 93.3333 | 91.3043 | 95.4545 | 68.5714 | 42 | 4 | 42 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | D16_PLUS | map_siren | * | 92.1664 | 95.1049 | 89.4040 | 94.7129 | 136 | 7 | 135 | 16 | 2 | 12.5000 | |
| dgrover-gatk | INDEL | D16_PLUS | map_siren | het | 91.2085 | 96.1538 | 86.7470 | 95.9234 | 75 | 3 | 72 | 11 | 2 | 18.1818 | |
| dgrover-gatk | INDEL | D16_PLUS | segdup | * | 92.5620 | 96.5517 | 88.8889 | 96.4467 | 56 | 2 | 56 | 7 | 2 | 28.5714 | |
| dgrover-gatk | INDEL | D16_PLUS | segdup | het | 90.9091 | 100.0000 | 83.3333 | 96.7033 | 37 | 0 | 35 | 7 | 2 | 28.5714 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 83.4621 | 71.8941 | 99.4667 | 29.5113 | 353 | 138 | 373 | 2 | 2 | 100.0000 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 95.3020 | 94.6667 | 95.9459 | 64.9289 | 71 | 4 | 71 | 3 | 2 | 66.6667 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 92.8571 | 100.0000 | 86.6667 | 58.3333 | 13 | 0 | 13 | 2 | 2 | 100.0000 | |