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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
37901-37950 / 86044 show all | |||||||||||||||
| anovak-vg | INDEL | * | * | * | 70.4960 | 69.7491 | 71.2591 | 54.1876 | 240315 | 104227 | 248606 | 100270 | 81436 | 81.2167 | |
| anovak-vg | INDEL | * | map_l150_m1_e0 | het | 70.8356 | 70.4094 | 71.2670 | 91.2380 | 602 | 253 | 630 | 254 | 71 | 27.9528 | |
| anovak-vg | INDEL | * | map_l125_m2_e0 | * | 72.8494 | 74.4991 | 71.2712 | 87.8407 | 1636 | 560 | 1682 | 678 | 383 | 56.4897 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 65.2028 | 60.0760 | 71.2862 | 53.7688 | 790 | 525 | 787 | 317 | 306 | 96.5300 | |
| gduggal-snapvard | SNP | * | map_l250_m2_e0 | het | 81.9515 | 96.3612 | 71.2908 | 92.3358 | 5005 | 189 | 4954 | 1995 | 92 | 4.6115 | |
| mlin-fermikit | INDEL | D1_5 | map_l150_m1_e0 | homalt | 69.3694 | 67.5439 | 71.2963 | 80.2016 | 154 | 74 | 154 | 62 | 57 | 91.9355 | |
| gduggal-snapvard | INDEL | D6_15 | HG002compoundhet | * | 59.7955 | 51.4782 | 71.3183 | 33.2912 | 4649 | 4382 | 4896 | 1969 | 1719 | 87.3032 | |
| gduggal-snapvard | INDEL | D6_15 | HG002compoundhet | het | 67.0812 | 63.3178 | 71.3203 | 33.1905 | 542 | 314 | 4894 | 1968 | 1718 | 87.2967 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 77.9143 | 85.8268 | 71.3376 | 72.6003 | 109 | 18 | 112 | 45 | 44 | 97.7778 | |
| gduggal-snapvard | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 79.4795 | 89.6706 | 71.3684 | 71.4189 | 43284 | 4986 | 93686 | 37585 | 31016 | 82.5223 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 79.9744 | 90.9326 | 71.3733 | 92.8433 | 351 | 35 | 369 | 148 | 33 | 22.2973 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 60.5876 | 52.6310 | 71.3784 | 62.8612 | 5011 | 4510 | 6504 | 2608 | 1963 | 75.2684 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 76.3336 | 82.0225 | 71.3826 | 66.3055 | 146 | 32 | 222 | 89 | 24 | 26.9663 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 76.5556 | 82.5342 | 71.3846 | 62.2751 | 723 | 153 | 464 | 186 | 158 | 84.9462 | |
| gduggal-snapvard | SNP | * | HG002compoundhet | het | 77.1322 | 83.8682 | 71.3978 | 57.2411 | 11890 | 2287 | 13270 | 5316 | 2307 | 43.3973 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 82.8586 | 98.6945 | 71.4019 | 83.3644 | 378 | 5 | 382 | 153 | 93 | 60.7843 | |
| anovak-vg | SNP | tv | HG002compoundhet | homalt | 77.3553 | 84.3861 | 71.4060 | 43.1411 | 2859 | 529 | 2717 | 1088 | 616 | 56.6176 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 77.1176 | 83.8177 | 71.4094 | 81.9321 | 1269 | 245 | 1596 | 639 | 277 | 43.3490 | |
| bgallagher-sentieon | INDEL | D16_PLUS | map_l250_m2_e0 | * | 83.3333 | 100.0000 | 71.4286 | 97.5862 | 5 | 0 | 5 | 2 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | map_l250_m2_e1 | * | 83.3333 | 100.0000 | 71.4286 | 97.6109 | 5 | 0 | 5 | 2 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | map_l100_m2_e0 | homalt | 83.3333 | 100.0000 | 71.4286 | 97.4910 | 5 | 0 | 5 | 2 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | map_l100_m2_e1 | homalt | 83.3333 | 100.0000 | 71.4286 | 97.5000 | 5 | 0 | 5 | 2 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D1_5 | map_l250_m0_e0 | het | 80.0000 | 90.9091 | 71.4286 | 97.8582 | 30 | 3 | 30 | 12 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | map_l125_m0_e0 | * | 76.9231 | 83.3333 | 71.4286 | 97.2763 | 5 | 1 | 5 | 2 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | map_l150_m1_e0 | het | 76.9231 | 83.3333 | 71.4286 | 96.3731 | 5 | 1 | 5 | 2 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | map_l150_m2_e0 | het | 76.9231 | 83.3333 | 71.4286 | 96.9565 | 5 | 1 | 5 | 2 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | map_l150_m2_e1 | het | 76.9231 | 83.3333 | 71.4286 | 96.9697 | 5 | 1 | 5 | 2 | 0 | 0.0000 | |
| astatham-gatk | INDEL | D16_PLUS | map_l250_m2_e0 | * | 83.3333 | 100.0000 | 71.4286 | 97.7492 | 5 | 0 | 5 | 2 | 0 | 0.0000 | |
| astatham-gatk | INDEL | D16_PLUS | map_l250_m2_e1 | * | 83.3333 | 100.0000 | 71.4286 | 97.7707 | 5 | 0 | 5 | 2 | 0 | 0.0000 | |
| astatham-gatk | INDEL | I16_PLUS | map_l100_m2_e0 | homalt | 83.3333 | 100.0000 | 71.4286 | 97.5177 | 5 | 0 | 5 | 2 | 0 | 0.0000 | |
| astatham-gatk | INDEL | I16_PLUS | map_l100_m2_e1 | homalt | 83.3333 | 100.0000 | 71.4286 | 97.5265 | 5 | 0 | 5 | 2 | 0 | 0.0000 | |
| ghariani-varprowl | INDEL | I16_PLUS | map_l100_m1_e0 | het | 76.9231 | 83.3333 | 71.4286 | 83.7209 | 15 | 3 | 15 | 6 | 4 | 66.6667 | |
| ghariani-varprowl | INDEL | I16_PLUS | map_l100_m2_e0 | het | 76.9231 | 83.3333 | 71.4286 | 86.0000 | 15 | 3 | 15 | 6 | 4 | 66.6667 | |
| ghariani-varprowl | INDEL | I16_PLUS | map_l100_m2_e1 | het | 76.9231 | 83.3333 | 71.4286 | 86.0927 | 15 | 3 | 15 | 6 | 4 | 66.6667 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 59.4059 | 50.8475 | 71.4286 | 81.4978 | 30 | 29 | 30 | 12 | 12 | 100.0000 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 3.9487 | 2.0305 | 71.4286 | 91.6667 | 4 | 193 | 5 | 2 | 2 | 100.0000 | |
| gduggal-snapplat | INDEL | I6_15 | map_l100_m1_e0 | homalt | 25.0000 | 15.1515 | 71.4286 | 93.2692 | 5 | 28 | 5 | 2 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | I6_15 | map_l100_m2_e0 | homalt | 25.0000 | 15.1515 | 71.4286 | 93.7500 | 5 | 28 | 5 | 2 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | I6_15 | map_l100_m2_e1 | homalt | 25.0000 | 15.1515 | 71.4286 | 93.9130 | 5 | 28 | 5 | 2 | 0 | 0.0000 | |
| gduggal-snapvard | INDEL | C6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 71.4286 | 94.0000 | 0 | 0 | 15 | 6 | 4 | 66.6667 | |
| gduggal-snapfb | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 83.3333 | 100.0000 | 71.4286 | 70.8333 | 5 | 0 | 5 | 2 | 0 | 0.0000 | |
| gduggal-snapfb | SNP | * | map_l250_m2_e0 | hetalt | 83.3333 | 100.0000 | 71.4286 | 95.0000 | 5 | 0 | 5 | 2 | 0 | 0.0000 | |
| gduggal-snapfb | SNP | * | map_l250_m2_e1 | hetalt | 83.3333 | 100.0000 | 71.4286 | 95.0000 | 5 | 0 | 5 | 2 | 0 | 0.0000 | |
| gduggal-snapfb | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 83.3333 | 100.0000 | 71.4286 | 70.8333 | 5 | 0 | 5 | 2 | 0 | 0.0000 | |
| gduggal-snapfb | SNP | tv | map_l250_m2_e0 | hetalt | 83.3333 | 100.0000 | 71.4286 | 95.0000 | 5 | 0 | 5 | 2 | 0 | 0.0000 | |
| gduggal-snapfb | SNP | tv | map_l250_m2_e1 | hetalt | 83.3333 | 100.0000 | 71.4286 | 95.0000 | 5 | 0 | 5 | 2 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l250_m2_e0 | * | 83.3333 | 100.0000 | 71.4286 | 95.6790 | 5 | 0 | 5 | 2 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | map_l250_m2_e1 | * | 83.3333 | 100.0000 | 71.4286 | 95.7317 | 5 | 0 | 5 | 2 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 39.4737 | 27.2727 | 71.4286 | 84.6715 | 15 | 40 | 15 | 6 | 2 | 33.3333 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 42.5532 | 30.3030 | 71.4286 | 87.1560 | 10 | 23 | 10 | 4 | 1 | 25.0000 | |