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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
51551-51600 / 86044 show all | |||||||||||||||
| ckim-dragen | SNP | ti | map_l150_m1_e0 | het | 97.4739 | 98.7146 | 96.2639 | 80.0619 | 12211 | 159 | 12213 | 474 | 51 | 10.7595 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 87.3247 | 79.9043 | 96.2644 | 43.3225 | 334 | 84 | 335 | 13 | 7 | 53.8462 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 95.0122 | 93.7922 | 96.2644 | 75.4150 | 695 | 46 | 670 | 26 | 21 | 80.7692 | |
| gduggal-snapplat | SNP | * | HG002compoundhet | homalt | 94.8523 | 93.4799 | 96.2656 | 42.1750 | 10079 | 703 | 10002 | 388 | 273 | 70.3608 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 97.5728 | 98.9160 | 96.2656 | 77.1021 | 365 | 4 | 464 | 18 | 18 | 100.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 67.9939 | 52.5579 | 96.2669 | 70.6277 | 2065 | 1864 | 2063 | 80 | 56 | 70.0000 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.3473 | 94.4444 | 96.2675 | 68.4185 | 595 | 35 | 619 | 24 | 11 | 45.8333 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 92.1912 | 88.4459 | 96.2678 | 41.3787 | 3261 | 426 | 3250 | 126 | 83 | 65.8730 | |
| asubramanian-gatk | INDEL | I1_5 | map_l125_m2_e1 | het | 84.9321 | 75.9843 | 96.2687 | 92.4165 | 386 | 122 | 387 | 15 | 1 | 6.6667 | |
| mlin-fermikit | INDEL | I1_5 | map_siren | het | 82.5666 | 72.2784 | 96.2698 | 75.1037 | 1215 | 466 | 1213 | 47 | 36 | 76.5957 | |
| gduggal-snapplat | SNP | tv | map_siren | het | 96.1131 | 95.9558 | 96.2709 | 75.9094 | 27452 | 1157 | 27468 | 1064 | 479 | 45.0188 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.6979 | 99.1678 | 96.2710 | 69.5061 | 4409 | 37 | 4363 | 169 | 161 | 95.2663 | |
| asubramanian-gatk | SNP | * | HG002complexvar | hetalt | 93.8843 | 91.6129 | 96.2712 | 41.3519 | 284 | 26 | 284 | 11 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 97.8467 | 99.4746 | 96.2712 | 66.6478 | 568 | 3 | 568 | 22 | 22 | 100.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 96.2215 | 96.1718 | 96.2714 | 63.1699 | 1859 | 74 | 1859 | 72 | 59 | 81.9444 | |
| eyeh-varpipe | INDEL | * | map_l250_m2_e0 | * | 96.1728 | 96.0725 | 96.2733 | 98.1347 | 318 | 13 | 465 | 18 | 12 | 66.6667 | |
| cchapple-custom | INDEL | D1_5 | map_l100_m2_e1 | * | 96.8194 | 97.3698 | 96.2752 | 82.6901 | 1888 | 51 | 1861 | 72 | 9 | 12.5000 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 85.9762 | 77.6671 | 96.2761 | 24.1736 | 546 | 157 | 1060 | 41 | 41 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.5546 | 98.8657 | 96.2777 | 63.5724 | 2702 | 31 | 2690 | 104 | 99 | 95.1923 | |
| gduggal-snapplat | INDEL | * | map_l150_m2_e1 | homalt | 82.8857 | 72.7642 | 96.2779 | 92.5618 | 358 | 134 | 388 | 15 | 0 | 0.0000 | |
| ckim-dragen | SNP | ti | map_l150_m2_e1 | het | 97.5046 | 98.7630 | 96.2780 | 81.6768 | 12854 | 161 | 12856 | 497 | 54 | 10.8652 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 95.1996 | 94.1441 | 96.2791 | 59.2803 | 209 | 13 | 207 | 8 | 6 | 75.0000 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l125_m0_e0 | * | 97.6181 | 98.9919 | 96.2818 | 88.4650 | 491 | 5 | 492 | 19 | 3 | 15.7895 | |
| ckim-dragen | INDEL | I1_5 | map_l150_m2_e0 | * | 95.5340 | 94.7977 | 96.2818 | 90.8259 | 492 | 27 | 492 | 19 | 5 | 26.3158 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 83.4617 | 73.6541 | 96.2825 | 47.7670 | 2572 | 920 | 2590 | 100 | 75 | 75.0000 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 96.2894 | 96.2963 | 96.2825 | 60.4412 | 260 | 10 | 259 | 10 | 7 | 70.0000 | |
| 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 | |
| rpoplin-dv42 | INDEL | D6_15 | HG002complexvar | hetalt | 92.5754 | 89.1412 | 96.2848 | 45.0369 | 903 | 110 | 933 | 36 | 35 | 97.2222 | |
| ckim-dragen | SNP | * | map_l125_m0_e0 | het | 97.3570 | 98.4523 | 96.2857 | 80.0772 | 12468 | 196 | 12469 | 481 | 37 | 7.6923 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 79.8732 | 68.2411 | 96.2857 | 80.2619 | 3034 | 1412 | 3033 | 117 | 59 | 50.4274 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.5943 | 98.9387 | 96.2859 | 86.8966 | 4102 | 44 | 4122 | 159 | 29 | 18.2390 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 88.8215 | 82.4299 | 96.2877 | 75.1298 | 441 | 94 | 415 | 16 | 14 | 87.5000 | |
| ckim-vqsr | INDEL | * | map_l125_m2_e0 | het | 95.6234 | 94.9676 | 96.2882 | 93.0044 | 1321 | 70 | 1323 | 51 | 5 | 9.8039 | |
| jpowers-varprowl | SNP | * | map_l150_m0_e0 | * | 95.7982 | 95.3125 | 96.2888 | 84.7317 | 11468 | 564 | 11468 | 442 | 141 | 31.9005 | |
| ckim-dragen | INDEL | * | map_l125_m2_e1 | * | 96.5933 | 96.8989 | 96.2897 | 89.3425 | 2156 | 69 | 2154 | 83 | 14 | 16.8675 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 93.9836 | 91.7841 | 96.2911 | 69.5456 | 3452 | 309 | 3453 | 133 | 125 | 93.9850 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 93.9836 | 91.7841 | 96.2911 | 69.5456 | 3452 | 309 | 3453 | 133 | 125 | 93.9850 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.2302 | 96.1664 | 96.2940 | 60.8295 | 36449 | 1453 | 39105 | 1505 | 1051 | 69.8339 | |
| eyeh-varpipe | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.8170 | 99.3884 | 96.2946 | 56.5927 | 27788 | 171 | 27079 | 1042 | 134 | 12.8599 | |
| eyeh-varpipe | INDEL | I1_5 | map_l125_m2_e0 | hetalt | 83.4862 | 73.6842 | 96.2963 | 92.3944 | 14 | 5 | 26 | 1 | 0 | 0.0000 | |
| eyeh-varpipe | INDEL | I1_5 | map_l125_m2_e1 | hetalt | 83.4862 | 73.6842 | 96.2963 | 92.5000 | 14 | 5 | 26 | 1 | 0 | 0.0000 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 67.4676 | 51.9231 | 96.2963 | 59.0909 | 27 | 25 | 52 | 2 | 2 | 100.0000 | |
| eyeh-varpipe | SNP | * | map_l250_m1_e0 | hetalt | 98.1132 | 100.0000 | 96.2963 | 87.5000 | 4 | 0 | 26 | 1 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | * | map_l250_m1_e0 | homalt | 95.8525 | 95.4128 | 96.2963 | 96.6728 | 104 | 5 | 104 | 4 | 3 | 75.0000 | |
| gduggal-snapfb | INDEL | D6_15 | map_l125_m0_e0 | het | 80.3709 | 68.9655 | 96.2963 | 85.1648 | 20 | 9 | 26 | 1 | 1 | 100.0000 | |
| gduggal-bwafb | INDEL | D6_15 | map_l150_m0_e0 | het | 95.6438 | 95.0000 | 96.2963 | 89.8496 | 19 | 1 | 26 | 1 | 0 | 0.0000 | |
| gduggal-bwafb | INDEL | D6_15 | map_l150_m2_e0 | homalt | 94.5455 | 92.8571 | 96.2963 | 92.5000 | 26 | 2 | 26 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | map_l100_m1_e0 | het | 71.2329 | 56.5217 | 96.2963 | 96.3563 | 26 | 20 | 26 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | map_l100_m2_e0 | het | 69.3333 | 54.1667 | 96.2963 | 96.6871 | 26 | 22 | 26 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | map_siren | het | 78.7879 | 66.6667 | 96.2963 | 95.7447 | 52 | 26 | 52 | 2 | 2 | 100.0000 | |