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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
9601-9650 / 86044 show all | |||||||||||||||
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.3782 | 97.2964 | 95.4772 | 69.1463 | 2879 | 80 | 2871 | 136 | 12 | 8.8235 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 95.1753 | 97.5423 | 92.9204 | 74.8692 | 1786 | 45 | 1785 | 136 | 12 | 8.8235 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 96.3297 | 97.9167 | 94.7933 | 63.6617 | 2491 | 53 | 2476 | 136 | 15 | 11.0294 | |
| raldana-dualsentieon | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.0144 | 98.4246 | 99.6113 | 60.1683 | 34861 | 558 | 34851 | 136 | 14 | 10.2941 | |
| raldana-dualsentieon | SNP | * | map_l250_m2_e0 | het | 97.5099 | 97.6319 | 97.3881 | 89.3936 | 5071 | 123 | 5071 | 136 | 3 | 2.2059 | |
| raldana-dualsentieon | SNP | tv | map_l125_m1_e0 | het | 98.8615 | 99.0618 | 98.6621 | 72.9114 | 10031 | 95 | 10029 | 136 | 1 | 0.7353 | |
| rpoplin-dv42 | SNP | ti | map_l100_m1_e0 | het | 99.3390 | 99.1350 | 99.5438 | 63.8948 | 29683 | 259 | 29675 | 136 | 82 | 60.2941 | |
| rpoplin-dv42 | SNP | ti | map_l100_m2_e0 | het | 99.3487 | 99.1444 | 99.5539 | 65.6465 | 30360 | 262 | 30352 | 136 | 82 | 60.2941 | |
| cchapple-custom | INDEL | D6_15 | * | homalt | 98.7463 | 99.6364 | 97.8720 | 46.7949 | 6303 | 23 | 6255 | 136 | 133 | 97.7941 | |
| ckim-gatk | SNP | tv | map_l125_m0_e0 | het | 78.5920 | 66.7348 | 95.5729 | 91.8237 | 2937 | 1464 | 2936 | 136 | 8 | 5.8824 | |
| ckim-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 77.8473 | 92.4490 | 67.2289 | 80.6707 | 453 | 37 | 279 | 136 | 131 | 96.3235 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.7377 | 99.8240 | 97.6748 | 57.4932 | 5671 | 10 | 5671 | 135 | 133 | 98.5185 | |
| ckim-gatk | INDEL | D6_15 | * | homalt | 98.8810 | 99.8735 | 97.9079 | 55.6525 | 6318 | 8 | 6318 | 135 | 132 | 97.7778 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.1861 | 99.8938 | 96.5358 | 60.0431 | 3762 | 4 | 3762 | 135 | 132 | 97.7778 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.1861 | 99.8938 | 96.5358 | 60.0431 | 3762 | 4 | 3762 | 135 | 132 | 97.7778 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 85.4055 | 83.0652 | 87.8815 | 45.0961 | 981 | 200 | 979 | 135 | 134 | 99.2593 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m2_e1 | * | 56.0921 | 48.9642 | 65.6489 | 92.3896 | 260 | 271 | 258 | 135 | 114 | 84.4444 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.5054 | 94.3089 | 98.8067 | 30.3644 | 10473 | 632 | 11178 | 135 | 126 | 93.3333 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.5576 | 99.9158 | 97.2359 | 49.7376 | 4749 | 4 | 4749 | 135 | 134 | 99.2593 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 39.9479 | 48.7805 | 33.8235 | 55.5556 | 40 | 42 | 69 | 135 | 108 | 80.0000 | |
| 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 | D6_15 | * | homalt | 98.8889 | 99.8893 | 97.9083 | 55.4989 | 6319 | 7 | 6319 | 135 | 133 | 98.5185 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.1994 | 99.9203 | 96.5367 | 59.9507 | 3763 | 3 | 3763 | 135 | 133 | 98.5185 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.1994 | 99.9203 | 96.5367 | 59.9507 | 3763 | 3 | 3763 | 135 | 133 | 98.5185 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.3384 | 99.0709 | 97.6165 | 72.3626 | 5545 | 52 | 5529 | 135 | 121 | 89.6296 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.4029 | 99.5574 | 99.2487 | 52.2265 | 17772 | 79 | 17835 | 135 | 7 | 5.1852 | |
| ltrigg-rtg1 | INDEL | D1_5 | HG002complexvar | * | 99.1020 | 98.6275 | 99.5810 | 54.4390 | 32266 | 449 | 32088 | 135 | 85 | 62.9630 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 89.7577 | 97.7169 | 82.9975 | 80.7748 | 856 | 20 | 659 | 135 | 120 | 88.8889 | |
| hfeng-pmm1 | SNP | * | map_l150_m2_e1 | * | 99.3543 | 99.1307 | 99.5789 | 75.1677 | 31930 | 280 | 31924 | 135 | 37 | 27.4074 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 85.4414 | 79.6287 | 92.1694 | 54.6077 | 1673 | 428 | 1589 | 135 | 130 | 96.2963 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.7933 | 96.5102 | 99.1110 | 60.0852 | 15210 | 550 | 15051 | 135 | 117 | 86.6667 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 93.4043 | 94.3966 | 92.4327 | 50.2787 | 438 | 26 | 1649 | 135 | 36 | 26.6667 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 68.4444 | 95.6522 | 53.2872 | 40.7787 | 154 | 7 | 154 | 135 | 135 | 100.0000 | |
| mlin-fermikit | SNP | tv | map_l100_m2_e1 | het | 70.6499 | 55.0822 | 98.4842 | 60.7475 | 8779 | 7159 | 8771 | 135 | 2 | 1.4815 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 84.5227 | 93.4426 | 77.1574 | 75.5280 | 456 | 32 | 456 | 135 | 119 | 88.1481 | |
| ltrigg-rtg2 | INDEL | D6_15 | * | * | 98.6807 | 97.9036 | 99.4704 | 46.9068 | 25545 | 547 | 25354 | 135 | 83 | 61.4815 | |
| ltrigg-rtg2 | SNP | * | map_l100_m1_e0 | * | 99.2192 | 98.6340 | 99.8113 | 53.5259 | 71414 | 989 | 71410 | 135 | 22 | 16.2963 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 53.2627 | 83.1081 | 39.1892 | 51.8438 | 123 | 25 | 87 | 135 | 134 | 99.2593 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 34.6434 | 31.9820 | 37.7880 | 55.5328 | 71 | 151 | 82 | 135 | 123 | 91.1111 | |
| dgrover-gatk | SNP | tv | map_l125_m1_e0 | * | 99.2231 | 99.2882 | 99.1581 | 73.2603 | 15902 | 114 | 15900 | 135 | 27 | 20.0000 | |
| dgrover-gatk | SNP | tv | map_l125_m2_e0 | * | 99.2454 | 99.3086 | 99.1822 | 74.7468 | 16375 | 114 | 16373 | 135 | 27 | 20.0000 | |
| dgrover-gatk | SNP | tv | map_l125_m2_e1 | * | 99.2530 | 99.3156 | 99.1905 | 74.7864 | 16543 | 114 | 16541 | 135 | 27 | 20.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 78.0811 | 92.6531 | 67.4699 | 80.7692 | 454 | 36 | 280 | 135 | 130 | 96.2963 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 85.6047 | 83.4039 | 87.9249 | 45.2229 | 985 | 196 | 983 | 135 | 134 | 99.2593 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.7289 | 99.8064 | 97.6744 | 57.4974 | 5670 | 11 | 5670 | 135 | 133 | 98.5185 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.5123 | 99.4950 | 99.5296 | 71.9110 | 28567 | 145 | 28561 | 135 | 47 | 34.8148 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.5123 | 99.4950 | 99.5296 | 71.9110 | 28567 | 145 | 28561 | 135 | 47 | 34.8148 | |
| rpoplin-dv42 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 91.6503 | 90.9598 | 92.3513 | 65.0841 | 1630 | 162 | 1630 | 135 | 133 | 98.5185 | |
| ghariani-varprowl | INDEL | D1_5 | map_l125_m1_e0 | het | 90.8745 | 98.7603 | 84.1549 | 90.4911 | 717 | 9 | 717 | 135 | 26 | 19.2593 | |