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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
79651-79700 / 86044 show all | |||||||||||||||
| gduggal-snapvard | INDEL | D1_5 | map_l125_m1_e0 | het | 85.4186 | 98.2094 | 75.5757 | 89.1583 | 713 | 13 | 919 | 297 | 91 | 30.6397 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.6331 | 99.2657 | 98.0084 | 78.2327 | 14464 | 107 | 14616 | 297 | 18 | 6.0606 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.6331 | 99.2657 | 98.0084 | 78.2327 | 14464 | 107 | 14616 | 297 | 18 | 6.0606 | |
| cchapple-custom | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.0953 | 99.8075 | 98.3931 | 40.1515 | 18148 | 35 | 18186 | 297 | 10 | 3.3670 | |
| ciseli-custom | SNP | * | segdup | homalt | 98.3606 | 99.4694 | 97.2762 | 88.7149 | 10686 | 57 | 10607 | 297 | 168 | 56.5657 | |
| eyeh-varpipe | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 95.6571 | 97.7672 | 93.6362 | 64.2950 | 4729 | 108 | 4370 | 297 | 64 | 21.5488 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 78.8161 | 88.4841 | 71.0526 | 89.1898 | 753 | 98 | 729 | 297 | 73 | 24.5791 | |
| hfeng-pmm2 | SNP | * | map_l125_m1_e0 | het | 99.0978 | 99.2392 | 98.9567 | 74.3753 | 28176 | 216 | 28170 | 297 | 25 | 8.4175 | |
| jmaeng-gatk | INDEL | I6_15 | HG002compoundhet | homalt | 17.2702 | 100.0000 | 9.4512 | 62.3853 | 31 | 0 | 31 | 297 | 295 | 99.3266 | |
| jmaeng-gatk | INDEL | * | HG002complexvar | * | 99.2404 | 98.8731 | 99.6104 | 58.2744 | 76071 | 867 | 75939 | 297 | 248 | 83.5017 | |
| jpowers-varprowl | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.4218 | 98.7654 | 96.1142 | 48.1999 | 7360 | 92 | 7371 | 298 | 81 | 27.1812 | |
| ciseli-custom | INDEL | I1_5 | map_l100_m2_e1 | het | 69.5757 | 72.8395 | 66.5919 | 86.3900 | 590 | 220 | 594 | 298 | 258 | 86.5772 | |
| cchapple-custom | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.3227 | 99.7146 | 98.9339 | 60.9851 | 27599 | 79 | 27655 | 298 | 24 | 8.0537 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 18.3933 | 12.4471 | 35.2174 | 39.3140 | 147 | 1034 | 162 | 298 | 265 | 88.9262 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 43.3697 | 38.1944 | 50.1672 | 54.4901 | 110 | 178 | 300 | 298 | 216 | 72.4832 | |
| asubramanian-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 92.7368 | 97.8723 | 88.1133 | 66.0895 | 2162 | 47 | 2209 | 298 | 219 | 73.4899 | |
| raldana-dualsentieon | SNP | * | map_l100_m0_e0 | het | 98.7044 | 98.8116 | 98.5974 | 70.4890 | 20953 | 252 | 20949 | 298 | 3 | 1.0067 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 82.0986 | 72.9041 | 93.9468 | 53.8786 | 4609 | 1713 | 4625 | 298 | 190 | 63.7584 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 82.0986 | 72.9041 | 93.9468 | 53.8786 | 4609 | 1713 | 4625 | 298 | 190 | 63.7584 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 56.5351 | 42.3182 | 85.1372 | 53.5880 | 1705 | 2324 | 1707 | 298 | 259 | 86.9128 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 57.8169 | 95.5224 | 41.4538 | 69.3558 | 192 | 9 | 211 | 298 | 13 | 4.3624 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 78.4383 | 93.0670 | 67.7838 | 87.7240 | 792 | 59 | 627 | 298 | 27 | 9.0604 | |
| eyeh-varpipe | SNP | ti | map_l125_m1_e0 | het | 98.9460 | 99.5456 | 98.3535 | 75.5124 | 18183 | 83 | 17801 | 298 | 15 | 5.0336 | |
| gduggal-bwaplat | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 88.2228 | 79.6951 | 98.7942 | 76.5609 | 24515 | 6246 | 24497 | 299 | 252 | 84.2809 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 95.6799 | 93.0581 | 98.4538 | 59.4166 | 12802 | 955 | 19039 | 299 | 108 | 36.1204 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 95.6799 | 93.0581 | 98.4538 | 59.4166 | 12802 | 955 | 19039 | 299 | 108 | 36.1204 | |
| gduggal-bwaplat | SNP | * | map_l100_m1_e0 | het | 86.2179 | 76.2737 | 99.1438 | 83.9192 | 34597 | 10762 | 34621 | 299 | 80 | 26.7559 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 28.4209 | 18.3007 | 63.5810 | 52.0444 | 280 | 1250 | 522 | 299 | 297 | 99.3311 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 28.4209 | 18.3007 | 63.5810 | 52.0444 | 280 | 1250 | 522 | 299 | 297 | 99.3311 | |
| ckim-isaac | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 82.7602 | 77.8800 | 88.2929 | 83.1252 | 2116 | 601 | 2255 | 299 | 150 | 50.1672 | |
| ckim-vqsr | INDEL | D1_5 | HG002compoundhet | * | 95.9661 | 94.4994 | 97.4791 | 66.2791 | 11562 | 673 | 11562 | 299 | 296 | 98.9967 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 31.4802 | 22.9894 | 49.9162 | 51.5028 | 303 | 1015 | 298 | 299 | 239 | 79.9331 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 47.5294 | 38.2286 | 62.8109 | 62.6047 | 505 | 816 | 505 | 299 | 296 | 98.9967 | |
| ckim-gatk | INDEL | D1_5 | HG002compoundhet | * | 95.9834 | 94.5321 | 97.4800 | 66.2715 | 11566 | 669 | 11566 | 299 | 296 | 98.9967 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 70.3763 | 84.5113 | 60.2922 | 79.7798 | 562 | 103 | 454 | 299 | 278 | 92.9766 | |
| raldana-dualsentieon | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.4822 | 99.9317 | 99.0367 | 73.5845 | 30740 | 21 | 30740 | 299 | 294 | 98.3278 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 80.3984 | 90.7602 | 72.1601 | 85.1616 | 776 | 79 | 775 | 299 | 5 | 1.6722 | |
| jmaeng-gatk | SNP | ti | map_l100_m0_e0 | het | 86.6066 | 78.0162 | 97.3229 | 85.9062 | 10909 | 3074 | 10906 | 300 | 35 | 11.6667 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 19.5758 | 15.3515 | 27.0073 | 33.7097 | 107 | 590 | 111 | 300 | 272 | 90.6667 | |
| ckim-isaac | INDEL | I16_PLUS | * | * | 74.7295 | 62.4588 | 93.0005 | 54.4140 | 3983 | 2394 | 3986 | 300 | 193 | 64.3333 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 79.1116 | 70.1992 | 90.6162 | 65.8002 | 2855 | 1212 | 2897 | 300 | 268 | 89.3333 | |
| ndellapenna-hhga | SNP | * | HG002complexvar | homalt | 99.8626 | 99.8292 | 99.8960 | 19.9404 | 288081 | 493 | 288110 | 300 | 268 | 89.3333 | |
| hfeng-pmm2 | SNP | * | map_l125_m2_e0 | het | 99.1177 | 99.2564 | 98.9794 | 75.5476 | 29100 | 218 | 29094 | 300 | 25 | 8.3333 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.4489 | 97.9134 | 98.9903 | 69.4877 | 29844 | 636 | 29412 | 300 | 222 | 74.0000 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.4489 | 97.9134 | 98.9903 | 69.4877 | 29844 | 636 | 29412 | 300 | 222 | 74.0000 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 69.7634 | 77.7946 | 63.2353 | 72.2165 | 515 | 147 | 516 | 300 | 115 | 38.3333 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 17.6716 | 10.8017 | 48.5470 | 60.1499 | 322 | 2659 | 284 | 301 | 281 | 93.3555 | |
| ciseli-custom | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 11.4943 | 74.0741 | 6.2305 | 81.1065 | 20 | 7 | 20 | 301 | 3 | 0.9967 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.3055 | 99.0812 | 99.5308 | 74.4619 | 63839 | 592 | 63852 | 301 | 259 | 86.0465 | |
| gduggal-bwafb | SNP | ti | map_l125_m2_e0 | * | 98.9368 | 98.8697 | 99.0039 | 73.9957 | 29916 | 342 | 29916 | 301 | 85 | 28.2392 | |