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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
25201-25250 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | INDEL | * | map_l100_m2_e0 | * | 80.6607 | 68.1018 | 98.8989 | 92.5303 | 2515 | 1178 | 2515 | 28 | 11 | 39.2857 | |
| anovak-vg | SNP | tv | HG002complexvar | homalt | 98.3199 | 97.7479 | 98.8987 | 22.7520 | 92969 | 2142 | 91242 | 1016 | 768 | 75.5906 | |
| jmaeng-gatk | INDEL | D6_15 | HG002complexvar | homalt | 99.3614 | 99.8289 | 98.8983 | 63.0673 | 1167 | 2 | 1167 | 13 | 12 | 92.3077 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.7443 | 92.7854 | 98.8981 | 31.4540 | 2032 | 158 | 2513 | 28 | 26 | 92.8571 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.2438 | 97.5990 | 98.8973 | 68.4428 | 1504 | 37 | 1435 | 16 | 3 | 18.7500 | |
| ckim-isaac | SNP | tv | map_l250_m0_e0 | het | 63.7441 | 47.0280 | 98.8971 | 94.7702 | 269 | 303 | 269 | 3 | 1 | 33.3333 | |
| gduggal-bwafb | INDEL | D6_15 | HG002compoundhet | het | 92.7842 | 87.3832 | 98.8969 | 23.0186 | 748 | 108 | 7531 | 84 | 67 | 79.7619 | |
| asubramanian-gatk | INDEL | * | segdup | * | 98.4487 | 98.0047 | 98.8968 | 98.3850 | 2505 | 51 | 2510 | 28 | 10 | 35.7143 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.5379 | 98.1817 | 98.8967 | 47.5296 | 17927 | 332 | 17928 | 200 | 196 | 98.0000 | |
| qzeng-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.2214 | 99.5485 | 98.8965 | 52.5869 | 11245 | 51 | 19268 | 215 | 45 | 20.9302 | |
| hfeng-pmm1 | SNP | tv | map_l250_m2_e1 | * | 98.6071 | 98.3196 | 98.8962 | 88.3190 | 2867 | 49 | 2867 | 32 | 7 | 21.8750 | |
| bgallagher-sentieon | INDEL | * | map_l100_m2_e0 | homalt | 99.1696 | 99.4449 | 98.8959 | 84.6359 | 1254 | 7 | 1254 | 14 | 6 | 42.8571 | |
| rpoplin-dv42 | SNP | * | map_l100_m0_e0 | het | 98.8725 | 98.8493 | 98.8958 | 68.4376 | 20961 | 244 | 20957 | 234 | 116 | 49.5726 | |
| astatham-gatk | INDEL | I1_5 | map_l125_m2_e0 | * | 96.2887 | 93.8156 | 98.8957 | 87.9420 | 804 | 53 | 806 | 9 | 2 | 22.2222 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.1915 | 97.4975 | 98.8955 | 61.4377 | 30622 | 786 | 30622 | 342 | 309 | 90.3509 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.1915 | 97.4975 | 98.8955 | 61.4377 | 30622 | 786 | 30622 | 342 | 309 | 90.3509 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l250_m2_e0 | * | 98.0822 | 97.2826 | 98.8950 | 95.4061 | 179 | 5 | 179 | 2 | 1 | 50.0000 | |
| mlin-fermikit | INDEL | I1_5 | func_cds | * | 99.1690 | 99.4444 | 98.8950 | 25.5144 | 179 | 1 | 179 | 2 | 1 | 50.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.2194 | 86.3886 | 98.8943 | 32.6995 | 1574 | 248 | 1610 | 18 | 16 | 88.8889 | |
| rpoplin-dv42 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.1682 | 99.4444 | 98.8935 | 86.9353 | 716 | 4 | 715 | 8 | 7 | 87.5000 | |
| mlin-fermikit | SNP | tv | HG002compoundhet | het | 90.8488 | 84.0146 | 98.8934 | 54.3251 | 3926 | 747 | 3932 | 44 | 8 | 18.1818 | |
| bgallagher-sentieon | INDEL | I1_5 | segdup | het | 99.1669 | 99.4424 | 98.8930 | 95.2746 | 535 | 3 | 536 | 6 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.1496 | 91.6793 | 98.8930 | 34.8700 | 2424 | 220 | 2948 | 33 | 31 | 93.9394 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.0758 | 99.2593 | 98.8930 | 58.8771 | 268 | 2 | 268 | 3 | 3 | 100.0000 | |
| ghariani-varprowl | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.4433 | 100.0000 | 98.8927 | 33.8067 | 1427 | 0 | 1429 | 16 | 9 | 56.2500 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.6760 | 92.6622 | 98.8925 | 36.2012 | 1528 | 121 | 1518 | 17 | 17 | 100.0000 | |
| dgrover-gatk | INDEL | * | map_l100_m2_e0 | homalt | 99.0099 | 99.1277 | 98.8924 | 84.9649 | 1250 | 11 | 1250 | 14 | 6 | 42.8571 | |
| asubramanian-gatk | INDEL | I16_PLUS | HG002complexvar | * | 97.0837 | 95.3400 | 98.8924 | 68.3287 | 1248 | 61 | 1250 | 14 | 14 | 100.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.3023 | 95.7627 | 98.8922 | 32.9054 | 904 | 40 | 982 | 11 | 10 | 90.9091 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.5033 | 98.1180 | 98.8917 | 42.6441 | 9280 | 178 | 9280 | 104 | 101 | 97.1154 | |
| jpowers-varprowl | INDEL | * | map_l100_m2_e0 | homalt | 95.3164 | 91.9905 | 98.8917 | 79.6672 | 1160 | 101 | 1160 | 13 | 8 | 61.5385 | |
| ckim-gatk | INDEL | * | func_cds | * | 99.3314 | 99.7753 | 98.8914 | 54.2132 | 444 | 1 | 446 | 5 | 1 | 20.0000 | |
| gduggal-bwaplat | SNP | ti | * | hetalt | 95.4648 | 92.2680 | 98.8909 | 56.0163 | 537 | 45 | 535 | 6 | 6 | 100.0000 | |
| jpowers-varprowl | SNP | tv | * | het | 99.1037 | 99.3176 | 98.8908 | 29.6901 | 587657 | 4038 | 587824 | 6593 | 166 | 2.5178 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.8303 | 98.7700 | 98.8907 | 49.1114 | 2409 | 30 | 2407 | 27 | 22 | 81.4815 | |
| bgallagher-sentieon | SNP | * | map_l150_m2_e1 | * | 99.1218 | 99.3542 | 98.8904 | 77.2353 | 32002 | 208 | 31996 | 359 | 62 | 17.2702 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.0250 | 86.0513 | 98.8900 | 40.6231 | 839 | 136 | 980 | 11 | 10 | 90.9091 | |
| gduggal-bwafb | INDEL | * | * | het | 97.2465 | 95.6571 | 98.8897 | 54.7010 | 185702 | 8431 | 212773 | 2389 | 1710 | 71.5781 | |
| asubramanian-gatk | INDEL | I6_15 | HG002complexvar | * | 97.6558 | 96.4524 | 98.8896 | 58.1164 | 4622 | 170 | 4631 | 52 | 44 | 84.6154 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 76.6168 | 62.5327 | 98.8894 | 32.4892 | 4306 | 2580 | 4007 | 45 | 40 | 88.8889 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.7616 | 98.6343 | 98.8892 | 60.8084 | 12350 | 171 | 12197 | 137 | 115 | 83.9416 | |
| egarrison-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.4707 | 98.0557 | 98.8892 | 80.4368 | 10591 | 210 | 10594 | 119 | 52 | 43.6975 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 77.1180 | 63.2035 | 98.8889 | 37.9310 | 292 | 170 | 267 | 3 | 3 | 100.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 63.0114 | 46.2366 | 98.8889 | 64.0000 | 86 | 100 | 89 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 90.7251 | 83.8065 | 98.8889 | 77.1767 | 797 | 154 | 801 | 9 | 7 | 77.7778 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.6463 | 98.4049 | 98.8889 | 50.5045 | 10241 | 166 | 10235 | 115 | 88 | 76.5217 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.4413 | 100.0000 | 98.8889 | 66.0804 | 267 | 0 | 267 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m2_e1 | het | 98.6414 | 98.3951 | 98.8889 | 85.5098 | 797 | 13 | 801 | 9 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 89.7947 | 82.2323 | 98.8889 | 27.1255 | 361 | 78 | 356 | 4 | 4 | 100.0000 | |
| jmaeng-gatk | INDEL | * | map_l100_m2_e0 | homalt | 98.8497 | 98.8105 | 98.8889 | 84.7844 | 1246 | 15 | 1246 | 14 | 7 | 50.0000 | |