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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
41501-41550 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.6653 | 98.1228 | 99.2138 | 75.9182 | 1934 | 37 | 1893 | 15 | 7 | 46.6667 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.6653 | 98.1228 | 99.2138 | 75.9182 | 1934 | 37 | 1893 | 15 | 7 | 46.6667 | |
| cchapple-custom | INDEL | C1_5 | HG002complexvar | homalt | 0.0000 | 0.0000 | 99.8741 | 75.9175 | 0 | 0 | 793 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.8251 | 98.5087 | 93.2839 | 75.9171 | 6143 | 93 | 6167 | 444 | 105 | 23.6486 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 94.9970 | 91.8216 | 98.4000 | 75.9152 | 247 | 22 | 246 | 4 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l100_m2_e1 | het | 97.9674 | 97.0820 | 98.8691 | 75.9144 | 1231 | 37 | 1224 | 14 | 1 | 7.1429 | |
| cchapple-custom | SNP | tv | map_l125_m2_e0 | * | 96.6110 | 97.3619 | 95.8717 | 75.9113 | 16054 | 435 | 16047 | 691 | 117 | 16.9320 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 78.8110 | 71.5116 | 87.7698 | 75.9099 | 123 | 49 | 122 | 17 | 11 | 64.7059 | |
| gduggal-snapplat | SNP | tv | map_siren | het | 96.1131 | 95.9558 | 96.2709 | 75.9094 | 27452 | 1157 | 27468 | 1064 | 479 | 45.0188 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 100.0000 | 100.0000 | 100.0000 | 75.9091 | 53 | 0 | 53 | 0 | 0 | ||
| egarrison-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 90.0691 | 91.5033 | 88.6792 | 75.9091 | 140 | 13 | 141 | 18 | 12 | 66.6667 | |
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.7825 | 99.6169 | 99.9487 | 75.9091 | 3900 | 15 | 3900 | 2 | 2 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 89.1429 | 95.1220 | 83.8710 | 75.9067 | 78 | 4 | 78 | 15 | 15 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.5820 | 99.5816 | 99.5825 | 75.9054 | 476 | 2 | 477 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | D16_PLUS | HG002complexvar | homalt | 98.6254 | 99.3080 | 97.9522 | 75.9046 | 287 | 2 | 287 | 6 | 5 | 83.3333 | |
| ndellapenna-hhga | SNP | ti | map_l125_m1_e0 | hetalt | 90.9091 | 83.3333 | 100.0000 | 75.9036 | 20 | 4 | 20 | 0 | 0 | ||
| raldana-dualsentieon | SNP | tv | map_l150_m2_e1 | * | 99.0225 | 99.0871 | 98.9579 | 75.9025 | 11397 | 105 | 11395 | 120 | 3 | 2.5000 | |
| ciseli-custom | SNP | tv | map_l100_m0_e0 | * | 78.9086 | 74.1158 | 84.3641 | 75.9006 | 8215 | 2869 | 8212 | 1522 | 391 | 25.6899 | |
| hfeng-pmm1 | SNP | * | map_l125_m0_e0 | het | 98.9783 | 98.6892 | 99.2691 | 75.8999 | 12498 | 166 | 12495 | 92 | 24 | 26.0870 | |
| ciseli-custom | INDEL | I16_PLUS | * | * | 18.6757 | 11.2906 | 53.9910 | 75.8984 | 720 | 5657 | 717 | 611 | 525 | 85.9247 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.2940 | 99.3207 | 97.2884 | 75.8975 | 19446 | 133 | 19446 | 542 | 30 | 5.5351 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.2940 | 99.3207 | 97.2884 | 75.8975 | 19446 | 133 | 19446 | 542 | 30 | 5.5351 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.5504 | 99.5402 | 99.5606 | 75.8969 | 14504 | 67 | 14502 | 64 | 17 | 26.5625 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.5504 | 99.5402 | 99.5606 | 75.8969 | 14504 | 67 | 14502 | 64 | 17 | 26.5625 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 84.5683 | 96.1187 | 75.4960 | 75.8909 | 842 | 34 | 761 | 247 | 247 | 100.0000 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 92.9577 | 89.1892 | 97.0588 | 75.8865 | 33 | 4 | 33 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | SNP | tv | map_l150_m2_e0 | * | 99.0273 | 99.0841 | 98.9706 | 75.8842 | 11251 | 104 | 11249 | 117 | 3 | 2.5641 | |
| bgallagher-sentieon | SNP | * | map_l125_m2_e1 | het | 99.0167 | 99.3893 | 98.6469 | 75.8815 | 29459 | 181 | 29453 | 404 | 55 | 13.6139 | |
| gduggal-snapfb | SNP | tv | map_l125_m2_e1 | * | 96.8978 | 97.3224 | 96.4768 | 75.8806 | 16211 | 446 | 16211 | 592 | 214 | 36.1486 | |
| ckim-isaac | SNP | ti | map_l150_m1_e0 | * | 71.6515 | 55.9050 | 99.7466 | 75.8793 | 11020 | 8692 | 11020 | 28 | 5 | 17.8571 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 75.2713 | 61.0778 | 98.0583 | 75.8782 | 102 | 65 | 101 | 2 | 2 | 100.0000 | |
| hfeng-pmm1 | SNP | tv | map_l150_m2_e1 | het | 99.1123 | 98.7752 | 99.4518 | 75.8770 | 7258 | 90 | 7256 | 40 | 10 | 25.0000 | |
| ndellapenna-hhga | INDEL | * | * | * | 97.3838 | 97.0938 | 97.6756 | 75.8762 | 334529 | 10013 | 335249 | 7978 | 6638 | 83.2038 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 97.8845 | 98.5348 | 97.2426 | 75.8758 | 538 | 8 | 529 | 15 | 15 | 100.0000 | |
| mlin-fermikit | INDEL | I1_5 | map_l100_m1_e0 | het | 71.4516 | 57.0142 | 95.6803 | 75.8729 | 443 | 334 | 443 | 20 | 12 | 60.0000 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 70.4495 | 67.4641 | 73.7113 | 75.8706 | 141 | 68 | 143 | 51 | 50 | 98.0392 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.1896 | 97.1447 | 99.2573 | 75.8638 | 1497 | 44 | 1470 | 11 | 4 | 36.3636 | |
| hfeng-pmm1 | SNP | tv | map_l150_m2_e0 | het | 99.1075 | 98.7728 | 99.4445 | 75.8631 | 7163 | 89 | 7161 | 40 | 10 | 25.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 97.6744 | 95.4545 | 100.0000 | 75.8621 | 42 | 2 | 42 | 0 | 0 | ||
| gduggal-snapplat | INDEL | I1_5 | tech_badpromoters | homalt | 60.0000 | 46.1538 | 85.7143 | 75.8621 | 6 | 7 | 6 | 1 | 0 | 0.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | func_cds | het | 93.3333 | 87.5000 | 100.0000 | 75.8621 | 7 | 1 | 7 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 75.6757 | 60.8696 | 100.0000 | 75.8621 | 14 | 9 | 14 | 0 | 0 | ||
| qzeng-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 79.3333 | 77.7778 | 80.9524 | 75.8621 | 21 | 6 | 17 | 4 | 4 | 100.0000 | |
| anovak-vg | INDEL | I16_PLUS | map_siren | het | 21.4286 | 12.2449 | 85.7143 | 75.8621 | 6 | 43 | 6 | 1 | 0 | 0.0000 | |
| ltrigg-rtg2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.3832 | 98.7739 | 100.0000 | 75.8608 | 3867 | 48 | 3884 | 0 | 0 | ||
| bgallagher-sentieon | SNP | * | map_l125_m0_e0 | * | 98.8636 | 99.1953 | 98.5342 | 75.8607 | 19229 | 156 | 19226 | 286 | 50 | 17.4825 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 73.1343 | 58.3082 | 98.0711 | 75.8578 | 965 | 690 | 966 | 19 | 6 | 31.5789 | |
| gduggal-snapplat | SNP | * | map_l100_m1_e0 | * | 95.4122 | 93.9174 | 96.9553 | 75.8528 | 67999 | 4404 | 68019 | 2136 | 1080 | 50.5618 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 80.3090 | 93.6464 | 70.2970 | 75.8518 | 339 | 23 | 284 | 120 | 119 | 99.1667 | |
| qzeng-custom | SNP | * | map_l100_m1_e0 | * | 87.6931 | 79.1127 | 98.3611 | 75.8509 | 57280 | 15123 | 56597 | 943 | 784 | 83.1389 | |