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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
26101-26150 / 86044 show all | |||||||||||||||
| jmaeng-gatk | INDEL | * | * | het | 99.3015 | 99.4880 | 99.1156 | 62.5254 | 193139 | 994 | 192770 | 1720 | 614 | 35.6977 | |
| qzeng-custom | INDEL | I16_PLUS | * | * | 83.4199 | 82.9387 | 83.9068 | 61.2425 | 5289 | 1088 | 5292 | 1015 | 362 | 35.6650 | |
| ghariani-varprowl | INDEL | I1_5 | map_l100_m1_e0 | * | 93.9359 | 94.3241 | 93.5508 | 86.7120 | 1263 | 76 | 1262 | 87 | 31 | 35.6322 | |
| mlin-fermikit | SNP | * | segdup | * | 98.0230 | 97.4311 | 98.6220 | 85.8156 | 27346 | 721 | 27340 | 382 | 136 | 35.6021 | |
| ghariani-varprowl | INDEL | I1_5 | map_l125_m2_e1 | * | 94.3117 | 95.2874 | 93.3559 | 90.0716 | 829 | 41 | 829 | 59 | 21 | 35.5932 | |
| gduggal-snapvard | SNP | * | func_cds | het | 99.2494 | 99.0323 | 99.4675 | 33.3113 | 11053 | 108 | 11020 | 59 | 21 | 35.5932 | |
| gduggal-snapfb | SNP | tv | map_l250_m1_e0 | het | 94.3085 | 95.9709 | 92.7027 | 86.6223 | 1715 | 72 | 1715 | 135 | 48 | 35.5556 | |
| ckim-vqsr | SNP | * | HG002complexvar | het | 99.0965 | 98.2281 | 99.9803 | 19.3098 | 457249 | 8248 | 457124 | 90 | 32 | 35.5556 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 80.4044 | 84.5779 | 76.6234 | 63.7476 | 521 | 95 | 590 | 180 | 64 | 35.5556 | |
| qzeng-custom | SNP | ti | HG002compoundhet | * | 98.4045 | 98.1577 | 98.6526 | 40.8633 | 17156 | 322 | 17719 | 242 | 86 | 35.5372 | |
| gduggal-snapvard | SNP | * | HG002complexvar | het | 97.7612 | 96.9682 | 98.5672 | 22.3358 | 451386 | 14113 | 439324 | 6386 | 2268 | 35.5152 | |
| jpowers-varprowl | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.9092 | 98.7644 | 97.0687 | 69.5742 | 27336 | 342 | 27419 | 828 | 294 | 35.5072 | |
| jli-custom | SNP | tv | HG002complexvar | het | 99.9074 | 99.8560 | 99.9588 | 21.3761 | 150514 | 217 | 150454 | 62 | 22 | 35.4839 | |
| ndellapenna-hhga | SNP | ti | segdup | * | 99.5651 | 99.6059 | 99.5244 | 88.6856 | 19460 | 77 | 19460 | 93 | 33 | 35.4839 | |
| egarrison-hhga | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.6867 | 98.3374 | 99.0385 | 67.1791 | 3194 | 54 | 3193 | 31 | 11 | 35.4839 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 91.6463 | 96.0573 | 87.6226 | 43.6282 | 1876 | 77 | 1876 | 265 | 94 | 35.4717 | |
| ciseli-custom | INDEL | C6_15 | HG002compoundhet | * | 0.0000 | 0.0000 | 4.8193 | 89.6894 | 0 | 0 | 4 | 79 | 28 | 35.4430 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 87.7770 | 94.3694 | 82.0455 | 74.5958 | 419 | 25 | 361 | 79 | 28 | 35.4430 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 92.0089 | 95.6607 | 88.6256 | 77.9404 | 485 | 22 | 374 | 48 | 17 | 35.4167 | |
| ndellapenna-hhga | INDEL | I6_15 | HG002complexvar | het | 96.5036 | 95.1592 | 97.8864 | 58.1922 | 2241 | 114 | 2223 | 48 | 17 | 35.4167 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.2771 | 98.9642 | 99.5919 | 45.6545 | 11752 | 123 | 11714 | 48 | 17 | 35.4167 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.5044 | 99.4538 | 99.5551 | 80.0137 | 10742 | 59 | 10742 | 48 | 17 | 35.4167 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.9634 | 98.0991 | 99.8431 | 67.2451 | 30551 | 592 | 30551 | 48 | 17 | 35.4167 | |
| astatham-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.9634 | 98.0991 | 99.8431 | 67.2451 | 30551 | 592 | 30551 | 48 | 17 | 35.4167 | |
| gduggal-bwavard | SNP | * | func_cds | * | 99.3111 | 98.9862 | 99.6380 | 30.1556 | 17966 | 184 | 17892 | 65 | 23 | 35.3846 | |
| gduggal-bwavard | SNP | * | func_cds | het | 99.2091 | 99.0055 | 99.4135 | 34.5015 | 11050 | 111 | 11018 | 65 | 23 | 35.3846 | |
| jlack-gatk | SNP | tv | HG002complexvar | * | 99.9000 | 99.8932 | 99.9069 | 22.4572 | 245889 | 263 | 245795 | 229 | 81 | 35.3712 | |
| gduggal-snapfb | SNP | * | map_l100_m1_e0 | homalt | 98.4097 | 97.1633 | 99.6885 | 68.9633 | 26237 | 766 | 26239 | 82 | 29 | 35.3659 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 96.1174 | 96.1050 | 96.1298 | 45.0129 | 2196 | 89 | 2459 | 99 | 35 | 35.3535 | |
| jli-custom | SNP | ti | map_l100_m0_e0 | * | 99.2096 | 98.8792 | 99.5422 | 63.1044 | 21527 | 244 | 21527 | 99 | 35 | 35.3535 | |
| ndellapenna-hhga | SNP | * | map_l100_m2_e1 | het | 99.0834 | 98.4264 | 99.7493 | 64.4229 | 46160 | 738 | 46162 | 116 | 41 | 35.3448 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 87.0247 | 88.6166 | 85.4890 | 87.6172 | 1121 | 144 | 1084 | 184 | 65 | 35.3261 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 62.4672 | 47.4093 | 91.5423 | 97.1706 | 183 | 203 | 184 | 17 | 6 | 35.2941 | |
| gduggal-bwaplat | SNP | ti | map_l150_m1_e0 | * | 68.9590 | 52.8054 | 99.3512 | 89.9469 | 10409 | 9303 | 10413 | 68 | 24 | 35.2941 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 80.2831 | 67.3994 | 99.2563 | 60.8562 | 4538 | 2195 | 4538 | 34 | 12 | 35.2941 | |
| rpoplin-dv42 | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 99.3525 | 99.2706 | 99.4347 | 70.0110 | 2994 | 22 | 2990 | 17 | 6 | 35.2941 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.9557 | 99.5662 | 98.3527 | 76.9179 | 918 | 4 | 1015 | 17 | 6 | 35.2941 | |
| jli-custom | SNP | tv | map_l125_m0_e0 | * | 98.7959 | 98.3713 | 99.2242 | 70.3527 | 6523 | 108 | 6523 | 51 | 18 | 35.2941 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.5131 | 99.3427 | 99.6841 | 80.0486 | 10730 | 71 | 10730 | 34 | 12 | 35.2941 | |
| astatham-gatk | SNP | tv | segdup | * | 99.1149 | 98.4412 | 99.7979 | 91.5044 | 8399 | 133 | 8395 | 17 | 6 | 35.2941 | |
| anovak-vg | INDEL | I6_15 | map_l125_m1_e0 | * | 63.3663 | 60.3774 | 66.6667 | 86.5079 | 32 | 21 | 34 | 17 | 6 | 35.2941 | |
| anovak-vg | INDEL | I6_15 | map_l125_m2_e0 | * | 63.3663 | 60.3774 | 66.6667 | 88.0282 | 32 | 21 | 34 | 17 | 6 | 35.2941 | |
| anovak-vg | INDEL | I6_15 | map_l125_m2_e1 | * | 63.3663 | 60.3774 | 66.6667 | 88.3295 | 32 | 21 | 34 | 17 | 6 | 35.2941 | |
| asubramanian-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.1035 | 98.9086 | 99.2991 | 66.9100 | 4803 | 53 | 4817 | 34 | 12 | 35.2941 | |
| asubramanian-gatk | SNP | * | map_l100_m0_e0 | het | 48.7115 | 32.2235 | 99.7518 | 92.2778 | 6833 | 14372 | 6833 | 17 | 6 | 35.2941 | |
| jli-custom | INDEL | * | map_l125_m0_e0 | * | 97.8989 | 97.7324 | 98.0660 | 88.3592 | 862 | 20 | 862 | 17 | 6 | 35.2941 | |
| hfeng-pmm3 | INDEL | I1_5 | HG002complexvar | het | 99.5309 | 99.1588 | 99.9057 | 57.5378 | 18036 | 153 | 18015 | 17 | 6 | 35.2941 | |
| hfeng-pmm1 | SNP | * | map_l250_m1_e0 | homalt | 99.4527 | 99.5940 | 99.3117 | 86.9979 | 2453 | 10 | 2453 | 17 | 6 | 35.2941 | |
| hfeng-pmm1 | SNP | * | map_l250_m2_e0 | homalt | 99.4794 | 99.5905 | 99.3685 | 87.8799 | 2675 | 11 | 2675 | 17 | 6 | 35.2941 | |
| hfeng-pmm1 | SNP | * | map_l250_m2_e1 | homalt | 99.4855 | 99.5953 | 99.3759 | 87.9341 | 2707 | 11 | 2707 | 17 | 6 | 35.2941 | |