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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
74201-74250 / 86044 show all | |||||||||||||||
| gduggal-bwavard | SNP | tv | HG002complexvar | homalt | 98.3914 | 96.9047 | 99.9244 | 20.9085 | 92167 | 2944 | 89912 | 68 | 35 | 51.4706 | |
| jli-custom | SNP | ti | map_l100_m0_e0 | * | 99.2096 | 98.8792 | 99.5422 | 63.1044 | 21527 | 244 | 21527 | 99 | 35 | 35.3535 | |
| jli-custom | SNP | ti | map_l150_m1_e0 | * | 99.2008 | 98.8636 | 99.5403 | 71.1664 | 19488 | 224 | 19486 | 90 | 35 | 38.8889 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 63.9254 | 60.6557 | 67.5676 | 77.1134 | 74 | 48 | 75 | 36 | 35 | 97.2222 | |
| jpowers-varprowl | INDEL | I1_5 | map_l100_m2_e1 | * | 93.7786 | 91.3262 | 96.3664 | 84.5822 | 1274 | 121 | 1273 | 48 | 35 | 72.9167 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 60.4024 | 51.6854 | 72.6562 | 71.4922 | 92 | 86 | 93 | 35 | 35 | 100.0000 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 68.7985 | 61.1111 | 78.6982 | 64.0426 | 132 | 84 | 133 | 36 | 35 | 97.2222 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 94.2269 | 89.9059 | 98.9842 | 47.2854 | 3438 | 386 | 3508 | 36 | 35 | 97.2222 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.6173 | 96.2411 | 96.9963 | 75.2089 | 1357 | 53 | 1324 | 41 | 35 | 85.3659 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.1956 | 99.3209 | 97.0954 | 73.3937 | 1170 | 8 | 1170 | 35 | 35 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.2881 | 95.5213 | 99.1216 | 64.1698 | 5076 | 238 | 5078 | 45 | 35 | 77.7778 | |
| jmaeng-gatk | SNP | ti | map_l100_m0_e0 | het | 86.6066 | 78.0162 | 97.3229 | 85.9062 | 10909 | 3074 | 10906 | 300 | 35 | 11.6667 | |
| jli-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 98.3153 | 97.1961 | 99.4606 | 33.3866 | 6621 | 191 | 6638 | 36 | 35 | 97.2222 | |
| jli-custom | INDEL | I16_PLUS | HG002compoundhet | homalt | 14.6341 | 100.0000 | 7.8947 | 76.3975 | 3 | 0 | 3 | 35 | 35 | 100.0000 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.7460 | 99.7576 | 95.8140 | 68.5212 | 823 | 2 | 824 | 36 | 35 | 97.2222 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.7460 | 99.7576 | 95.8140 | 68.5212 | 823 | 2 | 824 | 36 | 35 | 97.2222 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 82.4178 | 78.4483 | 86.8106 | 63.9896 | 364 | 100 | 362 | 55 | 35 | 63.6364 | |
| ckim-isaac | SNP | * | HG002complexvar | het | 96.2337 | 92.7890 | 99.9440 | 16.5252 | 431933 | 33567 | 432230 | 242 | 35 | 14.4628 | |
| ckim-isaac | SNP | * | HG002compoundhet | homalt | 90.1933 | 82.4430 | 99.5521 | 29.8507 | 8889 | 1893 | 8890 | 40 | 35 | 87.5000 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.1103 | 98.0341 | 98.1865 | 65.1058 | 1895 | 38 | 1895 | 35 | 35 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 91.0304 | 84.2624 | 98.9806 | 25.8726 | 4021 | 751 | 4078 | 42 | 35 | 83.3333 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 92.0493 | 86.2286 | 98.7126 | 25.5959 | 3281 | 524 | 3297 | 43 | 35 | 81.3953 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.9212 | 94.7708 | 99.1715 | 26.5340 | 4404 | 243 | 4429 | 37 | 35 | 94.5946 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 34.3653 | 22.6531 | 71.1538 | 64.7856 | 111 | 379 | 111 | 45 | 35 | 77.7778 | |
| eyeh-varpipe | INDEL | * | map_l125_m2_e0 | homalt | 96.9360 | 97.2477 | 96.6263 | 87.0809 | 742 | 21 | 1117 | 39 | 35 | 89.7436 | |
| eyeh-varpipe | INDEL | * | map_l125_m2_e1 | homalt | 96.9786 | 97.2868 | 96.6724 | 87.1688 | 753 | 21 | 1133 | 39 | 35 | 89.7436 | |
| dgrover-gatk | INDEL | I6_15 | HG002complexvar | homalt | 98.5378 | 99.9176 | 97.1955 | 55.8074 | 1213 | 1 | 1213 | 35 | 35 | 100.0000 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.1945 | 95.5607 | 98.8851 | 56.8401 | 3724 | 173 | 3725 | 42 | 35 | 83.3333 | |
| dgrover-gatk | SNP | * | HG002complexvar | homalt | 99.9653 | 99.9435 | 99.9872 | 19.8551 | 288411 | 163 | 288386 | 37 | 35 | 94.5946 | |
| dgrover-gatk | SNP | ti | map_l150_m1_e0 | * | 99.2284 | 99.1782 | 99.2787 | 76.9359 | 19550 | 162 | 19546 | 142 | 35 | 24.6479 | |
| dgrover-gatk | SNP | tv | map_siren | * | 99.6255 | 99.6408 | 99.6103 | 59.7727 | 45765 | 165 | 45757 | 179 | 35 | 19.5531 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 93.7151 | 96.2963 | 91.2688 | 89.1952 | 1248 | 48 | 1338 | 128 | 35 | 27.3438 | |
| qzeng-custom | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.4871 | 98.2529 | 96.7332 | 77.3918 | 3093 | 55 | 3198 | 108 | 35 | 32.4074 | |
| qzeng-custom | SNP | tv | HG002compoundhet | homalt | 98.8473 | 99.1145 | 98.5816 | 49.2075 | 3358 | 30 | 2780 | 40 | 35 | 87.5000 | |
| qzeng-custom | SNP | tv | map_l150_m2_e1 | homalt | 82.0801 | 70.1984 | 98.8034 | 73.9699 | 2902 | 1232 | 2890 | 35 | 35 | 100.0000 | |
| qzeng-custom | INDEL | D1_5 | map_l100_m1_e0 | * | 89.8865 | 83.4416 | 97.4105 | 87.5446 | 1542 | 306 | 1768 | 47 | 35 | 74.4681 | |
| qzeng-custom | INDEL | D1_5 | map_l100_m2_e0 | * | 90.1218 | 83.8120 | 97.4590 | 87.8583 | 1605 | 310 | 1841 | 48 | 35 | 72.9167 | |
| qzeng-custom | INDEL | I16_PLUS | HG002complexvar | homalt | 87.9947 | 95.1456 | 81.8436 | 65.5106 | 294 | 15 | 293 | 65 | 35 | 53.8462 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 90.5530 | 86.6267 | 94.8521 | 57.6727 | 868 | 134 | 866 | 47 | 35 | 74.4681 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 94.7368 | 93.2088 | 96.3158 | 71.7892 | 1098 | 80 | 1098 | 42 | 35 | 83.3333 | |
| qzeng-custom | INDEL | * | map_l125_m1_e0 | het | 82.2615 | 74.0824 | 92.4708 | 92.9115 | 989 | 346 | 1265 | 103 | 35 | 33.9806 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | * | * | 96.9914 | 94.9292 | 99.1450 | 56.0917 | 6440 | 344 | 6378 | 55 | 35 | 63.6364 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 96.0206 | 93.2787 | 98.9286 | 61.7804 | 4663 | 336 | 4617 | 50 | 35 | 70.0000 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 96.0206 | 93.2787 | 98.9286 | 61.7804 | 4663 | 336 | 4617 | 50 | 35 | 70.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.2206 | 92.5954 | 97.9989 | 55.8475 | 3689 | 295 | 3722 | 76 | 35 | 46.0526 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 74.0374 | 59.1106 | 99.0498 | 29.9414 | 4785 | 3310 | 4378 | 42 | 35 | 83.3333 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 77.0538 | 84.4720 | 70.8333 | 31.6726 | 136 | 25 | 136 | 56 | 35 | 62.5000 | |
| mlin-fermikit | INDEL | D6_15 | map_l100_m2_e1 | * | 74.8886 | 69.8182 | 80.7531 | 82.6560 | 192 | 83 | 193 | 46 | 35 | 76.0870 | |
| mlin-fermikit | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.1542 | 97.8551 | 98.4553 | 37.1727 | 3376 | 74 | 3378 | 53 | 35 | 66.0377 | |
| mlin-fermikit | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 98.3434 | 99.6186 | 97.1004 | 38.0755 | 1306 | 5 | 1306 | 39 | 35 | 89.7436 | |