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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
11201-11250 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.2194 | 86.3886 | 98.8943 | 32.6995 | 1574 | 248 | 1610 | 18 | 16 | 88.8889 | |
| bgallagher-sentieon | INDEL | I16_PLUS | * | * | 97.0316 | 96.1110 | 97.9699 | 70.7650 | 6129 | 248 | 6129 | 127 | 100 | 78.7402 | |
| bgallagher-sentieon | INDEL | * | HG002complexvar | hetalt | 95.7653 | 93.2955 | 98.3694 | 67.9599 | 3451 | 248 | 3680 | 61 | 61 | 100.0000 | |
| hfeng-pmm2 | SNP | * | map_l125_m1_e0 | * | 99.3629 | 99.4529 | 99.2732 | 71.9477 | 45079 | 248 | 45073 | 330 | 39 | 11.8182 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 91.7864 | 97.0356 | 87.0760 | 55.5089 | 8118 | 248 | 8112 | 1204 | 1184 | 98.3389 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 93.5003 | 97.0335 | 90.2153 | 59.9508 | 8112 | 248 | 8086 | 877 | 859 | 97.9475 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 93.5003 | 97.0335 | 90.2153 | 59.9508 | 8112 | 248 | 8086 | 877 | 859 | 97.9475 | |
| qzeng-custom | INDEL | D1_5 | map_l125_m2_e0 | * | 86.6114 | 78.3027 | 96.8927 | 91.2636 | 895 | 248 | 1029 | 33 | 27 | 81.8182 | |
| qzeng-custom | INDEL | D1_5 | map_l125_m2_e1 | * | 86.7845 | 78.5653 | 96.9245 | 91.3188 | 909 | 248 | 1040 | 33 | 27 | 81.8182 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.9649 | 98.5390 | 99.3944 | 72.2038 | 16727 | 248 | 16577 | 101 | 58 | 57.4257 | |
| qzeng-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.9649 | 98.5390 | 99.3944 | 72.2038 | 16727 | 248 | 16577 | 101 | 58 | 57.4257 | |
| ckim-dragen | SNP | * | map_l125_m0_e0 | * | 98.0759 | 98.7207 | 97.4394 | 76.5498 | 19137 | 248 | 19141 | 503 | 56 | 11.1332 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.8138 | 96.2869 | 99.3900 | 32.9111 | 6431 | 248 | 13686 | 84 | 81 | 96.4286 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.1543 | 99.2037 | 99.1050 | 72.6597 | 30895 | 248 | 30895 | 279 | 24 | 8.6022 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.1543 | 99.2037 | 99.1050 | 72.6597 | 30895 | 248 | 30895 | 279 | 24 | 8.6022 | |
| cchapple-custom | SNP | tv | map_l125_m1_e0 | het | 95.5171 | 97.5509 | 93.5664 | 77.7177 | 9878 | 248 | 9904 | 681 | 116 | 17.0338 | |
| cchapple-custom | SNP | tv | map_l125_m2_e0 | het | 95.6050 | 97.6250 | 93.6669 | 79.2937 | 10194 | 248 | 10220 | 691 | 117 | 16.9320 | |
| cchapple-custom | SNP | tv | map_l125_m2_e1 | het | 95.6281 | 97.6500 | 93.6882 | 79.3490 | 10305 | 248 | 10331 | 696 | 117 | 16.8103 | |
| ckim-gatk | INDEL | I1_5 | HG002complexvar | hetalt | 92.1829 | 85.6895 | 99.7411 | 68.7184 | 1479 | 247 | 1541 | 4 | 4 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.8132 | 93.8694 | 99.9475 | 22.1609 | 3782 | 247 | 3809 | 2 | 2 | 100.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.3235 | 86.4435 | 99.0619 | 31.9285 | 1575 | 247 | 1584 | 15 | 15 | 100.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.6894 | 93.8694 | 99.6841 | 24.6230 | 3782 | 247 | 3787 | 12 | 12 | 100.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 92.3921 | 86.0531 | 99.7392 | 40.4272 | 1524 | 247 | 1530 | 4 | 4 | 100.0000 | |
| ckim-vqsr | INDEL | I16_PLUS | * | * | 97.2630 | 96.1267 | 98.4265 | 70.8795 | 6130 | 247 | 6130 | 98 | 83 | 84.6939 | |
| egarrison-hhga | INDEL | I6_15 | HG002complexvar | * | 96.2019 | 94.8456 | 97.5976 | 55.0867 | 4545 | 247 | 4550 | 112 | 73 | 65.1786 | |
| jpowers-varprowl | SNP | * | map_l125_m2_e1 | homalt | 99.1340 | 98.5911 | 99.6828 | 71.9295 | 17285 | 247 | 17285 | 55 | 40 | 72.7273 | |
| gduggal-snapfb | SNP | tv | map_l100_m1_e0 | homalt | 98.3618 | 97.2686 | 99.4798 | 71.8035 | 8796 | 247 | 8797 | 46 | 9 | 19.5652 | |
| gduggal-snapplat | INDEL | D16_PLUS | HG002complexvar | hetalt | 0.0000 | 0.0000 | 0.0000 | 0 | 247 | 0 | 0 | 0 | |||
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 43.2741 | 27.9883 | 95.3488 | 70.3448 | 96 | 247 | 82 | 4 | 0 | 0.0000 | |
| ghariani-varprowl | SNP | * | map_l150_m2_e0 | het | 96.9127 | 98.7732 | 95.1210 | 82.9549 | 19886 | 247 | 19886 | 1020 | 198 | 19.4118 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 47.7273 | 35.0000 | 75.0000 | 70.9091 | 133 | 247 | 24 | 8 | 8 | 100.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l150_m1_e0 | * | 67.6240 | 51.1858 | 99.6154 | 96.0336 | 259 | 247 | 259 | 1 | 0 | 0.0000 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 75.9237 | 62.4049 | 96.9194 | 87.0711 | 410 | 247 | 409 | 13 | 4 | 30.7692 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l125_m2_e0 | het | 80.2795 | 67.6702 | 98.6641 | 94.7495 | 517 | 247 | 517 | 7 | 1 | 14.2857 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l125_m2_e1 | het | 80.4615 | 67.9221 | 98.6792 | 94.7881 | 523 | 247 | 523 | 7 | 1 | 14.2857 | |
| mlin-fermikit | INDEL | D1_5 | HG002complexvar | hetalt | 89.3834 | 81.7308 | 98.6171 | 71.1327 | 1105 | 247 | 1141 | 16 | 16 | 100.0000 | |
| ndellapenna-hhga | SNP | * | map_l250_m2_e0 | * | 98.1811 | 96.8675 | 99.5309 | 87.5400 | 7638 | 247 | 7638 | 36 | 19 | 52.7778 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.5306 | 92.3053 | 98.9896 | 52.2438 | 2963 | 247 | 2939 | 30 | 30 | 100.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 95.0800 | 95.1730 | 94.9873 | 39.7320 | 4870 | 247 | 4870 | 257 | 123 | 47.8599 | |
| asubramanian-gatk | INDEL | * | HG002complexvar | hetalt | 95.4215 | 93.3225 | 97.6172 | 69.3301 | 3452 | 247 | 3687 | 90 | 84 | 93.3333 | |
| hfeng-pmm2 | INDEL | I1_5 | HG002complexvar | * | 99.5522 | 99.2597 | 99.8464 | 56.6743 | 33116 | 247 | 33159 | 51 | 38 | 74.5098 | |
| jlack-gatk | SNP | * | map_l125_m2_e1 | homalt | 99.2279 | 98.5911 | 99.8729 | 66.9215 | 17285 | 247 | 17285 | 22 | 16 | 72.7273 | |
| hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.0389 | 98.3049 | 99.7840 | 74.1160 | 14324 | 247 | 14324 | 31 | 7 | 22.5806 | |
| hfeng-pmm1 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.0389 | 98.3049 | 99.7840 | 74.1160 | 14324 | 247 | 14324 | 31 | 7 | 22.5806 | |
| hfeng-pmm1 | SNP | * | map_l150_m1_e0 | het | 99.0880 | 98.7264 | 99.4522 | 74.8794 | 19070 | 246 | 19064 | 105 | 27 | 25.7143 | |
| jlack-gatk | SNP | * | map_l125_m2_e0 | homalt | 99.2238 | 98.5842 | 99.8717 | 66.9110 | 17129 | 246 | 17129 | 22 | 16 | 72.7273 | |
| ghariani-varprowl | SNP | ti | map_l125_m0_e0 | * | 97.4197 | 98.0724 | 96.7757 | 78.9680 | 12516 | 246 | 12516 | 417 | 104 | 24.9400 | |
| gduggal-snapfb | INDEL | D16_PLUS | HG002complexvar | hetalt | 0.0000 | 0.4049 | 0.0000 | 0.0000 | 1 | 246 | 0 | 0 | 0 | ||
| gduggal-snapfb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 0.0000 | 0.0000 | 0.0000 | 0 | 246 | 0 | 0 | 0 | |||
| ghariani-varprowl | INDEL | * | segdup | * | 89.4068 | 90.3756 | 88.4586 | 97.2748 | 2310 | 246 | 2307 | 301 | 223 | 74.0864 | |