PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
24751-24800 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | INDEL | D1_5 | * | * | 96.9939 | 96.6915 | 97.2981 | 56.7713 | 141890 | 4855 | 141954 | 3942 | 3509 | 89.0157 | |
| ckim-vqsr | INDEL | D1_5 | map_l125_m1_e0 | * | 96.7371 | 96.6912 | 96.7831 | 90.6738 | 1052 | 36 | 1053 | 35 | 5 | 14.2857 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.0263 | 96.6909 | 99.3990 | 68.1693 | 15545 | 532 | 15546 | 94 | 71 | 75.5319 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.0263 | 96.6909 | 99.3990 | 68.1693 | 15545 | 532 | 15546 | 94 | 71 | 75.5319 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.9932 | 96.6906 | 97.2976 | 45.4909 | 9145 | 313 | 9145 | 254 | 242 | 95.2756 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 97.8863 | 96.6892 | 99.1133 | 68.8334 | 2570 | 88 | 2571 | 23 | 22 | 95.6522 | |
| ndellapenna-hhga | INDEL | * | HG002complexvar | * | 97.2866 | 96.6882 | 97.8924 | 67.2163 | 74390 | 2548 | 74363 | 1601 | 1150 | 71.8301 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 89.8366 | 96.6865 | 83.8931 | 79.2152 | 2597 | 89 | 2573 | 494 | 7 | 1.4170 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.0894 | 96.6856 | 99.5346 | 57.0832 | 30367 | 1041 | 30368 | 142 | 126 | 88.7324 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.0894 | 96.6856 | 99.5346 | 57.0832 | 30367 | 1041 | 30368 | 142 | 126 | 88.7324 | |
| bgallagher-sentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.2141 | 96.6855 | 97.7484 | 68.9339 | 2567 | 88 | 2518 | 58 | 46 | 79.3103 | |
| cchapple-custom | INDEL | I1_5 | map_l100_m0_e0 | * | 96.5832 | 96.6851 | 96.4815 | 84.1223 | 525 | 18 | 521 | 19 | 5 | 26.3158 | |
| gduggal-snapfb | SNP | ti | map_l150_m2_e0 | het | 95.8374 | 96.6850 | 95.0046 | 76.3778 | 12454 | 427 | 12457 | 655 | 335 | 51.1450 | |
| hfeng-pmm1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 98.3139 | 96.6837 | 100.0000 | 33.5714 | 758 | 26 | 837 | 0 | 0 | ||
| asubramanian-gatk | SNP | tv | segdup | * | 97.9981 | 96.6831 | 99.3493 | 93.1884 | 8249 | 283 | 8245 | 54 | 6 | 11.1111 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 97.1485 | 96.6825 | 97.6190 | 55.2239 | 204 | 7 | 205 | 5 | 5 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.1429 | 96.6825 | 97.6077 | 61.5809 | 204 | 7 | 204 | 5 | 5 | 100.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.1429 | 96.6825 | 97.6077 | 63.0742 | 204 | 7 | 204 | 5 | 5 | 100.0000 | |
| eyeh-varpipe | INDEL | * | map_l250_m2_e1 | het | 96.4506 | 96.6825 | 96.2199 | 94.9010 | 204 | 7 | 280 | 11 | 5 | 45.4545 | |
| ghariani-varprowl | INDEL | * | map_l250_m2_e1 | het | 86.0759 | 96.6825 | 77.5665 | 97.5340 | 204 | 7 | 204 | 59 | 10 | 16.9492 | |
| jli-custom | INDEL | * | map_l250_m2_e1 | het | 96.2264 | 96.6825 | 95.7746 | 95.8087 | 204 | 7 | 204 | 9 | 2 | 22.2222 | |
| ltrigg-rtg2 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.7893 | 96.6821 | 98.9221 | 82.4044 | 1253 | 43 | 1193 | 13 | 1 | 7.6923 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 98.3128 | 96.6816 | 100.0000 | 40.4561 | 2593 | 89 | 2611 | 0 | 0 | ||
| ckim-vqsr | INDEL | * | map_l100_m1_e0 | * | 97.1981 | 96.6815 | 97.7202 | 88.7691 | 3467 | 119 | 3472 | 81 | 16 | 19.7531 | |
| cchapple-custom | SNP | ti | map_l125_m2_e0 | homalt | 98.3080 | 96.6808 | 99.9909 | 63.9160 | 10981 | 377 | 10979 | 1 | 1 | 100.0000 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 92.1962 | 96.6768 | 88.1125 | 56.1680 | 5411 | 186 | 12282 | 1657 | 662 | 39.9517 | |
| astatham-gatk | INDEL | * | map_l250_m2_e0 | * | 95.3800 | 96.6767 | 94.1176 | 96.2801 | 320 | 11 | 320 | 20 | 4 | 20.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.1292 | 96.6767 | 99.6259 | 57.5998 | 1600 | 55 | 1598 | 6 | 4 | 66.6667 | |
| hfeng-pmm1 | INDEL | I16_PLUS | * | * | 97.6402 | 96.6756 | 98.6242 | 68.7700 | 6165 | 212 | 6165 | 86 | 59 | 68.6047 | |
| gduggal-snapfb | INDEL | D1_5 | map_l125_m2_e0 | * | 96.0014 | 96.6754 | 95.3368 | 86.9241 | 1105 | 38 | 1104 | 54 | 9 | 16.6667 | |
| gduggal-bwavard | INDEL | D1_5 | map_l125_m2_e0 | * | 92.6484 | 96.6754 | 88.9435 | 89.1467 | 1105 | 38 | 1086 | 135 | 19 | 14.0741 | |
| jpowers-varprowl | SNP | ti | map_l150_m2_e1 | * | 97.3682 | 96.6752 | 98.0713 | 80.1400 | 20034 | 689 | 20034 | 394 | 141 | 35.7868 | |
| ndellapenna-hhga | SNP | * | map_l150_m0_e0 | het | 98.0583 | 96.6751 | 99.4816 | 79.2753 | 7676 | 264 | 7676 | 40 | 17 | 42.5000 | |
| mlin-fermikit | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 96.5257 | 96.6749 | 96.3770 | 70.3153 | 3140 | 108 | 3139 | 118 | 63 | 53.3898 | |
| jpowers-varprowl | SNP | ti | map_l100_m0_e0 | * | 97.4083 | 96.6745 | 98.1533 | 73.0718 | 21047 | 724 | 21048 | 396 | 147 | 37.1212 | |
| jpowers-varprowl | SNP | * | map_l150_m0_e0 | homalt | 98.1502 | 96.6740 | 99.6722 | 79.8976 | 3953 | 136 | 3953 | 13 | 6 | 46.1538 | |
| gduggal-bwavard | SNP | * | map_l150_m0_e0 | homalt | 98.1354 | 96.6740 | 99.6417 | 77.0204 | 3953 | 136 | 3893 | 14 | 10 | 71.4286 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.8737 | 96.6718 | 99.1058 | 64.7457 | 63176 | 2175 | 62956 | 568 | 465 | 81.8662 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.8737 | 96.6718 | 99.1058 | 64.7457 | 63176 | 2175 | 62956 | 568 | 465 | 81.8662 | |
| gduggal-snapfb | SNP | tv | map_l150_m2_e0 | * | 96.3189 | 96.6711 | 95.9692 | 79.3481 | 10977 | 378 | 10976 | 461 | 180 | 39.0456 | |
| cchapple-custom | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.9217 | 96.6692 | 99.2071 | 63.7791 | 5137 | 177 | 5380 | 43 | 37 | 86.0465 | |
| ltrigg-rtg1 | SNP | ti | map_l150_m0_e0 | * | 98.1783 | 96.6671 | 99.7375 | 70.0220 | 7599 | 262 | 7598 | 20 | 11 | 55.0000 | |
| ltrigg-rtg1 | INDEL | I6_15 | map_siren | homalt | 96.6288 | 96.6667 | 96.5909 | 78.8969 | 87 | 3 | 85 | 3 | 3 | 100.0000 | |
| ltrigg-rtg2 | INDEL | I6_15 | map_siren | homalt | 97.1812 | 96.6667 | 97.7011 | 75.2841 | 87 | 3 | 85 | 2 | 2 | 100.0000 | |
| jmaeng-gatk | INDEL | D1_5 | map_l250_m2_e0 | homalt | 98.3051 | 96.6667 | 100.0000 | 94.8763 | 58 | 2 | 58 | 0 | 0 | ||
| jmaeng-gatk | INDEL | D1_5 | map_l250_m2_e1 | homalt | 98.3051 | 96.6667 | 100.0000 | 95.0129 | 58 | 2 | 58 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.7707 | 96.6667 | 96.8750 | 65.8120 | 319 | 11 | 310 | 10 | 3 | 30.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 98.3051 | 96.6667 | 100.0000 | 88.0357 | 58 | 2 | 67 | 0 | 0 | ||
| cchapple-custom | INDEL | D1_5 | map_l250_m2_e0 | homalt | 98.3051 | 96.6667 | 100.0000 | 93.8841 | 58 | 2 | 57 | 0 | 0 | ||
| cchapple-custom | INDEL | D1_5 | map_l250_m2_e1 | homalt | 98.3051 | 96.6667 | 100.0000 | 94.0563 | 58 | 2 | 57 | 0 | 0 | ||