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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
45251-45300 / 86044 show all | |||||||||||||||
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 87.5304 | 79.5455 | 97.2973 | 66.0550 | 35 | 9 | 36 | 1 | 0 | 0.0000 | |
| ckim-isaac | SNP | ti | tech_badpromoters | het | 88.6076 | 79.5455 | 100.0000 | 43.5484 | 35 | 9 | 35 | 0 | 0 | ||
| egarrison-hhga | INDEL | D16_PLUS | HG002complexvar | * | 85.7883 | 79.5496 | 93.0889 | 62.2772 | 1307 | 336 | 1320 | 98 | 72 | 73.4694 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 87.9792 | 79.5523 | 98.4030 | 81.3702 | 26440 | 6796 | 26434 | 429 | 144 | 33.5664 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 41.3700 | 79.5535 | 27.9532 | 77.8018 | 677 | 174 | 717 | 1848 | 48 | 2.5974 | |
| ciseli-custom | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 79.4183 | 79.5592 | 79.2778 | 75.7467 | 51260 | 13170 | 51089 | 13354 | 8419 | 63.0448 | |
| mlin-fermikit | INDEL | D6_15 | HG002complexvar | hetalt | 87.9228 | 79.5656 | 98.2415 | 48.4281 | 806 | 207 | 838 | 15 | 15 | 100.0000 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | * | 85.6061 | 79.5775 | 92.6230 | 28.6550 | 113 | 29 | 113 | 9 | 9 | 100.0000 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 80.9804 | 79.5796 | 82.4314 | 68.2439 | 530 | 136 | 1112 | 237 | 115 | 48.5232 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 80.9804 | 79.5796 | 82.4314 | 68.2439 | 530 | 136 | 1112 | 237 | 115 | 48.5232 | |
| gduggal-bwaplat | INDEL | D6_15 | segdup | * | 87.8562 | 79.5812 | 98.0519 | 96.2676 | 152 | 39 | 151 | 3 | 1 | 33.3333 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 87.6651 | 79.5918 | 97.5610 | 83.9844 | 39 | 10 | 40 | 1 | 1 | 100.0000 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | hetalt | 0.0000 | 79.5918 | 0.0000 | 0.0000 | 39 | 10 | 0 | 0 | 0 | ||
| mlin-fermikit | INDEL | I16_PLUS | map_siren | het | 81.2500 | 79.5918 | 82.9787 | 86.6856 | 39 | 10 | 39 | 8 | 5 | 62.5000 | |
| ckim-isaac | INDEL | D6_15 | segdup | hetalt | 88.6364 | 79.5918 | 100.0000 | 89.4472 | 39 | 10 | 42 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | I16_PLUS | map_siren | het | 86.6667 | 79.5918 | 95.1220 | 66.6667 | 39 | 10 | 39 | 2 | 0 | 0.0000 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 73.2107 | 79.5963 | 67.7737 | 81.2197 | 1104 | 283 | 1102 | 524 | 4 | 0.7634 | |
| qzeng-custom | SNP | * | map_l100_m2_e1 | * | 87.9879 | 79.6031 | 98.3471 | 77.0361 | 59493 | 15244 | 58784 | 988 | 790 | 79.9595 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 87.6933 | 79.6065 | 97.6088 | 41.6096 | 4329 | 1109 | 4327 | 106 | 105 | 99.0566 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 81.1184 | 79.6209 | 82.6733 | 50.0000 | 168 | 43 | 167 | 35 | 34 | 97.1429 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 52.1029 | 79.6221 | 38.7203 | 60.5927 | 590 | 151 | 587 | 929 | 868 | 93.4338 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 87.9184 | 79.6226 | 98.1439 | 49.1745 | 422 | 108 | 423 | 8 | 7 | 87.5000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 85.4414 | 79.6287 | 92.1694 | 54.6077 | 1673 | 428 | 1589 | 135 | 130 | 96.2963 | |
| jli-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 88.4727 | 79.6334 | 99.5192 | 27.2727 | 391 | 100 | 414 | 2 | 2 | 100.0000 | |
| anovak-vg | SNP | ti | map_l150_m2_e0 | homalt | 88.3955 | 79.6350 | 99.3218 | 72.4413 | 6065 | 1551 | 6004 | 41 | 36 | 87.8049 | |
| qzeng-custom | INDEL | * | map_l100_m1_e0 | het | 83.3456 | 79.6421 | 87.4105 | 89.3842 | 1780 | 455 | 2319 | 334 | 53 | 15.8683 | |
| jlack-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 88.6792 | 79.6610 | 100.0000 | 71.7391 | 47 | 12 | 52 | 0 | 0 | ||
| gduggal-snapfb | INDEL | I6_15 | map_l100_m1_e0 | het | 85.0531 | 79.6610 | 91.2281 | 72.1951 | 47 | 12 | 52 | 5 | 4 | 80.0000 | |
| ckim-isaac | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 86.1870 | 79.6610 | 93.8776 | 52.8846 | 47 | 12 | 46 | 3 | 3 | 100.0000 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 78.4461 | 79.6640 | 77.2650 | 73.1213 | 4078 | 1041 | 4068 | 1197 | 480 | 40.1003 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 86.3392 | 79.6642 | 94.2350 | 61.3539 | 427 | 109 | 425 | 26 | 23 | 88.4615 | |
| gduggal-snapplat | SNP | tv | map_l150_m0_e0 | homalt | 88.6840 | 79.6687 | 100.0000 | 81.7822 | 1058 | 270 | 1059 | 0 | 0 | ||
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 79.4110 | 79.6748 | 79.1489 | 83.7595 | 196 | 50 | 186 | 49 | 46 | 93.8776 | |
| mlin-fermikit | INDEL | D1_5 | map_l100_m2_e1 | homalt | 79.7254 | 79.6774 | 79.7735 | 78.1084 | 494 | 126 | 493 | 125 | 119 | 95.2000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 87.6436 | 79.6791 | 97.3770 | 64.0330 | 298 | 76 | 297 | 8 | 7 | 87.5000 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 88.4263 | 79.6804 | 99.3289 | 28.2061 | 1745 | 445 | 1924 | 13 | 11 | 84.6154 | |
| 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_SimpleRepeat_quadTR_51to200 | * | 85.4267 | 79.7078 | 92.0297 | 56.2094 | 982 | 250 | 993 | 86 | 52 | 60.4651 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 88.0126 | 79.7101 | 98.2456 | 58.3942 | 55 | 14 | 56 | 1 | 1 | 100.0000 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 85.5570 | 79.7101 | 92.3295 | 70.6177 | 330 | 84 | 325 | 27 | 17 | 62.9630 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 88.7097 | 79.7101 | 100.0000 | 53.3898 | 55 | 14 | 55 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 88.1747 | 79.7149 | 98.6431 | 65.5124 | 727 | 185 | 727 | 10 | 8 | 80.0000 | |
| mlin-fermikit | INDEL | I6_15 | map_siren | het | 82.8019 | 79.7203 | 86.1314 | 81.4363 | 114 | 29 | 118 | 19 | 17 | 89.4737 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 74.5124 | 79.7221 | 69.9419 | 60.7095 | 9982 | 2539 | 10713 | 4604 | 2731 | 59.3180 | |
| ckim-isaac | INDEL | * | map_siren | het | 87.7323 | 79.7249 | 97.5278 | 80.3155 | 3594 | 914 | 3590 | 91 | 35 | 38.4615 | |
| jpowers-varprowl | INDEL | D6_15 | HG002complexvar | homalt | 84.3192 | 79.7263 | 89.4737 | 58.7771 | 932 | 237 | 935 | 110 | 93 | 84.5455 | |
| ghariani-varprowl | INDEL | D6_15 | HG002complexvar | homalt | 83.9832 | 79.7263 | 88.7204 | 58.7246 | 932 | 237 | 936 | 119 | 92 | 77.3109 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 85.9187 | 79.7297 | 93.1494 | 34.9226 | 118 | 30 | 979 | 72 | 70 | 97.2222 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 74.0454 | 79.7297 | 69.1176 | 73.4893 | 118 | 30 | 94 | 42 | 42 | 100.0000 | |
| anovak-vg | SNP | tv | HG002compoundhet | het | 77.7767 | 79.7346 | 75.9127 | 53.8008 | 3726 | 947 | 4346 | 1379 | 1030 | 74.6918 | |