PrecisionFDA
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
51201-51250 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | INDEL | I16_PLUS | HG002complexvar | het | 98.6280 | 97.2932 | 100.0000 | 62.8860 | 647 | 18 | 625 | 0 | 0 | ||
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 83.9467 | 95.9574 | 74.6082 | 62.8854 | 451 | 19 | 476 | 162 | 26 | 16.0494 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 79.2669 | 90.1745 | 70.7134 | 62.8847 | 1964 | 214 | 2260 | 936 | 894 | 95.5128 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 36.7207 | 26.5537 | 59.5041 | 62.8834 | 47 | 130 | 72 | 49 | 25 | 51.0204 | |
| gduggal-bwaplat | INDEL | I1_5 | func_cds | het | 90.7407 | 83.0508 | 100.0000 | 62.8788 | 49 | 10 | 49 | 0 | 0 | ||
| rpoplin-dv42 | INDEL | I1_5 | * | hetalt | 96.4651 | 93.5954 | 99.5163 | 62.8772 | 10478 | 717 | 10493 | 51 | 48 | 94.1176 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.6020 | 89.7937 | 95.5916 | 62.8768 | 1654 | 188 | 1648 | 76 | 46 | 60.5263 | |
| cchapple-custom | INDEL | D16_PLUS | * | * | 96.3496 | 95.5041 | 97.2102 | 62.8743 | 6479 | 305 | 6725 | 193 | 158 | 81.8653 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 66.5297 | 57.6700 | 78.6058 | 62.8737 | 1391 | 1021 | 654 | 178 | 164 | 92.1348 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.8761 | 99.2488 | 98.5061 | 62.8641 | 1057 | 8 | 1055 | 16 | 16 | 100.0000 | |
| 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 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.2262 | 95.8879 | 96.5669 | 62.8612 | 3078 | 132 | 3066 | 109 | 106 | 97.2477 | |
| gduggal-bwaplat | INDEL | D6_15 | func_cds | het | 94.5455 | 89.6552 | 100.0000 | 62.8571 | 26 | 3 | 26 | 0 | 0 | ||
| egarrison-hhga | INDEL | I1_5 | tech_badpromoters | homalt | 100.0000 | 100.0000 | 100.0000 | 62.8571 | 13 | 0 | 13 | 0 | 0 | ||
| egarrison-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 97.0711 | 95.0820 | 99.1453 | 62.8571 | 116 | 6 | 116 | 1 | 1 | 100.0000 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 84.0471 | 96.0902 | 74.6866 | 62.8554 | 1278 | 52 | 2800 | 949 | 275 | 28.9779 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.3301 | 95.6145 | 99.1085 | 62.8544 | 62485 | 2866 | 62808 | 565 | 237 | 41.9469 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.3301 | 95.6145 | 99.1085 | 62.8544 | 62485 | 2866 | 62808 | 565 | 237 | 41.9469 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 71.0414 | 97.4522 | 55.8935 | 62.8531 | 153 | 4 | 147 | 116 | 4 | 3.4483 | |
| jpowers-varprowl | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.2932 | 99.0454 | 99.5422 | 62.8527 | 6952 | 67 | 6958 | 32 | 4 | 12.5000 | |
| gduggal-snapvard | SNP | * | map_l100_m2_e1 | homalt | 98.0418 | 96.3556 | 99.7880 | 62.8493 | 26783 | 1013 | 26357 | 56 | 43 | 76.7857 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.5885 | 99.1803 | 100.0000 | 62.8483 | 121 | 1 | 120 | 0 | 0 | ||
| hfeng-pmm3 | SNP | ti | map_l100_m1_e0 | * | 99.6742 | 99.5848 | 99.7638 | 62.8483 | 47732 | 199 | 47725 | 113 | 21 | 18.5841 | |
| gduggal-snapvard | SNP | * | map_l100_m2_e0 | homalt | 98.0484 | 96.3703 | 99.7860 | 62.8472 | 26524 | 999 | 26107 | 56 | 43 | 76.7857 | |
| gduggal-bwafb | INDEL | D16_PLUS | HG002complexvar | homalt | 81.9487 | 86.8512 | 77.5701 | 62.8472 | 251 | 38 | 249 | 72 | 72 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 99.2072 | 98.6486 | 99.7720 | 62.8458 | 1314 | 18 | 1313 | 3 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | I1_5 | * | homalt | 83.6103 | 76.4695 | 92.2220 | 62.8436 | 46209 | 14219 | 46704 | 3939 | 356 | 9.0378 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.3948 | 97.3583 | 97.4313 | 62.8424 | 3796 | 103 | 3793 | 100 | 40 | 40.0000 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 94.6012 | 97.7642 | 91.6364 | 62.8378 | 481 | 11 | 504 | 46 | 23 | 50.0000 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 80.7110 | 78.7684 | 82.7519 | 62.8376 | 857 | 231 | 854 | 178 | 178 | 100.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 98.9340 | 99.3274 | 98.5437 | 62.8374 | 15654 | 106 | 15496 | 229 | 203 | 88.6463 | |
| dgrover-gatk | INDEL | D6_15 | HG002complexvar | homalt | 99.4048 | 100.0000 | 98.8166 | 62.8338 | 1169 | 0 | 1169 | 14 | 14 | 100.0000 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 61.9624 | 60.8696 | 63.0952 | 62.8319 | 56 | 36 | 53 | 31 | 30 | 96.7742 | |
| egarrison-hhga | SNP | * | map_l100_m1_e0 | * | 99.5435 | 99.2404 | 99.8485 | 62.8269 | 71853 | 550 | 71854 | 109 | 49 | 44.9541 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 85.3933 | 76.1905 | 97.1246 | 62.8266 | 304 | 95 | 304 | 9 | 7 | 77.7778 | |
| ckim-vqsr | INDEL | D1_5 | func_cds | het | 99.4220 | 100.0000 | 98.8506 | 62.8205 | 85 | 0 | 86 | 1 | 0 | 0.0000 | |
| ckim-gatk | INDEL | D1_5 | func_cds | het | 99.4220 | 100.0000 | 98.8506 | 62.8205 | 85 | 0 | 86 | 1 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | * | func_cds | het | 95.9801 | 99.5327 | 92.6724 | 62.8205 | 213 | 1 | 215 | 17 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D6_15 | HG002complexvar | homalt | 99.0619 | 99.3157 | 98.8095 | 62.8201 | 1161 | 8 | 1162 | 14 | 14 | 100.0000 | |
| mlin-fermikit | SNP | * | map_l125_m0_e0 | het | 49.1614 | 32.7622 | 98.4323 | 62.8190 | 4149 | 8515 | 4144 | 66 | 3 | 4.5455 | |
| hfeng-pmm2 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.4917 | 99.0340 | 99.9536 | 62.8172 | 2153 | 21 | 2153 | 1 | 0 | 0.0000 | |
| ciseli-custom | SNP | * | map_l100_m2_e0 | homalt | 90.4763 | 89.7867 | 91.1766 | 62.8157 | 24712 | 2811 | 24604 | 2381 | 1867 | 78.4124 | |
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.5366 | 99.3299 | 95.8069 | 62.8145 | 2668 | 18 | 2719 | 119 | 1 | 0.8403 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 95.3020 | 94.6667 | 95.9459 | 62.8141 | 71 | 4 | 71 | 3 | 2 | 66.6667 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5300 | 97.9644 | 99.1021 | 62.8102 | 5727 | 119 | 5629 | 51 | 17 | 33.3333 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5300 | 97.9644 | 99.1021 | 62.8102 | 5727 | 119 | 5629 | 51 | 17 | 33.3333 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.9273 | 88.2463 | 98.1328 | 62.8086 | 473 | 63 | 473 | 9 | 8 | 88.8889 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.7238 | 100.0000 | 99.4490 | 62.8074 | 361 | 0 | 361 | 2 | 1 | 50.0000 | |
| dgrover-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.8260 | 99.6527 | 100.0000 | 62.8065 | 3443 | 12 | 3443 | 0 | 0 | ||
| astatham-gatk | INDEL | D6_15 | * | het | 98.7915 | 99.4048 | 98.1857 | 62.8008 | 11523 | 69 | 11473 | 212 | 175 | 82.5472 | |