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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13751-13800 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 88.8393 | 94.3128 | 83.9662 | 66.8067 | 199 | 12 | 199 | 38 | 33 | 86.8421 | |
| dgrover-gatk | INDEL | D1_5 | HG002complexvar | * | 99.6498 | 99.5323 | 99.7675 | 58.6672 | 32562 | 153 | 32617 | 76 | 66 | 86.8421 | |
| bgallagher-sentieon | SNP | * | * | homalt | 99.9858 | 99.9781 | 99.9936 | 17.1960 | 1179902 | 259 | 1179878 | 76 | 66 | 86.8421 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 98.1412 | 97.5428 | 98.7469 | 41.4519 | 23937 | 603 | 23956 | 304 | 264 | 86.8421 | |
| anovak-vg | SNP | * | map_l125_m0_e0 | homalt | 85.5602 | 75.1937 | 99.2421 | 70.8421 | 5047 | 1665 | 4976 | 38 | 33 | 86.8421 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 59.7005 | 42.6942 | 99.2246 | 54.0503 | 4903 | 6581 | 4863 | 38 | 33 | 86.8421 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 71.9701 | 57.8195 | 95.2912 | 87.3887 | 769 | 561 | 769 | 38 | 33 | 86.8421 | |
| bgallagher-sentieon | INDEL | * | HG002complexvar | * | 99.4954 | 99.3774 | 99.6137 | 58.2041 | 76459 | 479 | 76328 | 296 | 257 | 86.8243 | |
| egarrison-hhga | INDEL | D6_15 | * | * | 86.6592 | 82.4007 | 91.3819 | 53.7350 | 21500 | 4592 | 21631 | 2040 | 1771 | 86.8137 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 63.1364 | 48.1459 | 91.6819 | 62.9404 | 4025 | 4335 | 4012 | 364 | 316 | 86.8132 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 63.1364 | 48.1459 | 91.6819 | 62.9404 | 4025 | 4335 | 4012 | 364 | 316 | 86.8132 | |
| ciseli-custom | INDEL | I1_5 | HG002complexvar | homalt | 88.0614 | 87.4926 | 88.6376 | 45.0592 | 11766 | 1682 | 11522 | 1477 | 1282 | 86.7976 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.4688 | 94.0129 | 99.0564 | 39.7188 | 5543 | 353 | 5564 | 53 | 46 | 86.7925 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.4688 | 94.0129 | 99.0564 | 39.7188 | 5543 | 353 | 5564 | 53 | 46 | 86.7925 | |
| jlack-gatk | SNP | * | HG002complexvar | homalt | 99.9456 | 99.9096 | 99.9816 | 19.7398 | 288313 | 261 | 288284 | 53 | 46 | 86.7925 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 84.4901 | 91.1227 | 78.7575 | 78.2666 | 349 | 34 | 393 | 106 | 92 | 86.7925 | |
| ghariani-varprowl | INDEL | I1_5 | * | * | 89.9389 | 88.6296 | 91.2876 | 58.9415 | 133532 | 17131 | 133404 | 12732 | 11050 | 86.7892 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.7771 | 97.1844 | 98.3771 | 67.7791 | 63511 | 1840 | 63286 | 1044 | 906 | 86.7816 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.7771 | 97.1844 | 98.3771 | 67.7791 | 63511 | 1840 | 63286 | 1044 | 906 | 86.7816 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 76.5549 | 62.5570 | 98.6231 | 39.2209 | 8778 | 5254 | 8094 | 113 | 98 | 86.7257 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 92.6329 | 89.7120 | 95.7505 | 61.0009 | 14423 | 1654 | 21721 | 964 | 836 | 86.7220 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 92.6329 | 89.7120 | 95.7505 | 61.0009 | 14423 | 1654 | 21721 | 964 | 836 | 86.7220 | |
| hfeng-pmm1 | INDEL | D6_15 | * | het | 98.2571 | 97.6449 | 98.8769 | 58.2726 | 11319 | 273 | 11269 | 128 | 111 | 86.7188 | |
| ciseli-custom | INDEL | D16_PLUS | HG002complexvar | homalt | 50.2549 | 88.5813 | 35.0778 | 60.5689 | 256 | 33 | 248 | 459 | 398 | 86.7102 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 35.0447 | 30.4403 | 41.2903 | 53.1797 | 1196 | 2733 | 1216 | 1729 | 1499 | 86.6975 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.4435 | 95.6053 | 99.3537 | 62.1556 | 2306 | 106 | 2306 | 15 | 13 | 86.6667 | |
| ckim-dragen | SNP | tv | map_l100_m1_e0 | homalt | 99.6733 | 99.5134 | 99.8336 | 57.5832 | 8999 | 44 | 8999 | 15 | 13 | 86.6667 | |
| ckim-dragen | SNP | tv | map_l100_m2_e0 | homalt | 99.6739 | 99.5116 | 99.8367 | 60.2338 | 9169 | 45 | 9169 | 15 | 13 | 86.6667 | |
| ckim-dragen | SNP | tv | map_l100_m2_e1 | homalt | 99.6770 | 99.5162 | 99.8382 | 60.2316 | 9257 | 45 | 9257 | 15 | 13 | 86.6667 | |
| ckim-dragen | SNP | tv | map_l125_m1_e0 | homalt | 99.5812 | 99.4198 | 99.7432 | 62.3307 | 5826 | 34 | 5826 | 15 | 13 | 86.6667 | |
| ckim-dragen | SNP | tv | map_l125_m2_e0 | homalt | 99.5838 | 99.4183 | 99.7499 | 65.0891 | 5982 | 35 | 5982 | 15 | 13 | 86.6667 | |
| ckim-dragen | SNP | tv | map_l125_m2_e1 | homalt | 99.5877 | 99.4238 | 99.7522 | 65.1046 | 6039 | 35 | 6039 | 15 | 13 | 86.6667 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.6130 | 91.3876 | 98.0745 | 66.7520 | 764 | 72 | 764 | 15 | 13 | 86.6667 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 99.2068 | 99.2630 | 99.1506 | 88.9811 | 1751 | 13 | 1751 | 15 | 13 | 86.6667 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.7933 | 96.5102 | 99.1110 | 60.0852 | 15210 | 550 | 15051 | 135 | 117 | 86.6667 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.7029 | 96.5935 | 98.8381 | 61.3357 | 1276 | 45 | 1276 | 15 | 13 | 86.6667 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.1754 | 99.4737 | 98.8789 | 38.7923 | 1323 | 7 | 1323 | 15 | 13 | 86.6667 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.2767 | 87.0680 | 98.1481 | 43.3170 | 781 | 116 | 795 | 15 | 13 | 86.6667 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.6891 | 96.9760 | 98.4127 | 66.3940 | 930 | 29 | 930 | 15 | 13 | 86.6667 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.9148 | 91.0141 | 94.8966 | 61.7747 | 3626 | 358 | 3626 | 195 | 169 | 86.6667 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 97.8956 | 97.3822 | 98.4144 | 74.9934 | 930 | 25 | 931 | 15 | 13 | 86.6667 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 53.4400 | 37.6975 | 91.7582 | 47.5504 | 167 | 276 | 167 | 15 | 13 | 86.6667 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.3724 | 94.0724 | 98.7877 | 56.0658 | 3666 | 231 | 3667 | 45 | 39 | 86.6667 | |
| jmaeng-gatk | SNP | tv | HG002complexvar | homalt | 99.2171 | 98.4618 | 99.9840 | 23.0284 | 93648 | 1463 | 93634 | 15 | 13 | 86.6667 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 53.6664 | 37.9233 | 91.7582 | 47.7011 | 168 | 275 | 167 | 15 | 13 | 86.6667 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.9954 | 97.2403 | 98.7624 | 61.1289 | 1198 | 34 | 1197 | 15 | 13 | 86.6667 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.1735 | 97.7444 | 89.0110 | 87.2161 | 650 | 15 | 486 | 60 | 52 | 86.6667 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.1235 | 99.2295 | 99.0178 | 67.7817 | 13651 | 106 | 13609 | 135 | 117 | 86.6667 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.1235 | 99.2295 | 99.0178 | 67.7817 | 13651 | 106 | 13609 | 135 | 117 | 86.6667 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.6432 | 96.0756 | 99.2628 | 61.8299 | 8079 | 330 | 8079 | 60 | 52 | 86.6667 | |