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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
80001-80050 / 86044 show all | |||||||||||||||
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.7128 | 97.1052 | 98.3282 | 43.4107 | 3757 | 112 | 11704 | 199 | 182 | 91.4573 | |
| gduggal-bwafb | SNP | * | map_l150_m2_e1 | homalt | 99.4055 | 98.9685 | 99.8465 | 74.9037 | 11705 | 122 | 11705 | 18 | 11 | 61.1111 | |
| rpoplin-dv42 | SNP | * | map_l150_m2_e1 | homalt | 99.3508 | 98.9854 | 99.7189 | 73.6505 | 11707 | 120 | 11707 | 33 | 32 | 96.9697 | |
| ckim-gatk | SNP | tv | map_l125_m1_e0 | * | 83.4275 | 73.1269 | 97.1059 | 85.2195 | 11712 | 4304 | 11710 | 349 | 14 | 4.0115 | |
| 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-isaac | SNP | ti | map_l150_m2_e1 | * | 72.1848 | 56.5603 | 99.7362 | 77.6680 | 11721 | 9002 | 11721 | 31 | 7 | 22.5806 | |
| dgrover-gatk | INDEL | D1_5 | HG002compoundhet | * | 96.6517 | 95.7826 | 97.5368 | 66.6083 | 11719 | 516 | 11721 | 296 | 293 | 98.9865 | |
| jli-custom | INDEL | D1_5 | HG002compoundhet | * | 97.1251 | 95.8153 | 98.4712 | 65.0788 | 11723 | 512 | 11723 | 182 | 174 | 95.6044 | |
| ckim-vqsr | SNP | * | map_l100_m2_e0 | homalt | 59.7529 | 42.6116 | 99.9659 | 78.6625 | 11728 | 15795 | 11728 | 4 | 3 | 75.0000 | |
| dgrover-gatk | SNP | * | map_l150_m2_e1 | homalt | 99.5206 | 99.1629 | 99.8808 | 71.2164 | 11728 | 99 | 11728 | 14 | 10 | 71.4286 | |
| ciseli-custom | SNP | tv | map_l100_m2_e0 | het | 79.2677 | 74.3804 | 84.8423 | 77.0207 | 11735 | 4042 | 11732 | 2096 | 75 | 3.5782 | |
| ndellapenna-hhga | SNP | * | map_l150_m0_e0 | * | 98.5596 | 97.5316 | 99.6095 | 77.4194 | 11735 | 297 | 11735 | 46 | 22 | 47.8261 | |
| jmaeng-gatk | SNP | tv | map_l125_m1_e0 | * | 83.4629 | 73.2830 | 96.9274 | 85.3732 | 11737 | 4279 | 11735 | 372 | 13 | 3.4946 | |
| astatham-gatk | INDEL | I1_5 | HG002compoundhet | * | 96.1407 | 94.9417 | 97.3704 | 66.4075 | 11731 | 625 | 11738 | 317 | 315 | 99.3691 | |
| qzeng-custom | SNP | ti | HG002compoundhet | het | 98.0838 | 97.7380 | 98.4320 | 42.6883 | 9290 | 215 | 11739 | 187 | 45 | 24.0642 | |
| ckim-dragen | SNP | * | map_l150_m2_e1 | homalt | 99.4914 | 99.2221 | 99.7621 | 68.4589 | 11735 | 92 | 11740 | 28 | 25 | 89.2857 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 98.7070 | 97.8532 | 99.5759 | 69.9799 | 5971 | 131 | 11741 | 50 | 42 | 84.0000 | |
| egarrison-hhga | INDEL | I1_5 | HG002compoundhet | * | 96.1134 | 95.0631 | 97.1871 | 62.4825 | 11746 | 610 | 11747 | 340 | 264 | 77.6471 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3527 | 98.8800 | 99.8300 | 48.5551 | 11742 | 133 | 11747 | 20 | 11 | 55.0000 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 69.4365 | 97.1073 | 54.0383 | 40.3757 | 8124 | 242 | 11749 | 9993 | 9948 | 99.5497 | |
| ckim-vqsr | SNP | tv | map_l100_m2_e1 | het | 84.3869 | 73.7420 | 98.6235 | 86.5752 | 11753 | 4185 | 11750 | 164 | 1 | 0.6098 | |
| ckim-isaac | SNP | ti | map_l125_m1_e0 | het | 78.2097 | 64.3326 | 99.7200 | 73.5328 | 11751 | 6515 | 11751 | 33 | 3 | 9.0909 | |
| ghariani-varprowl | SNP | * | map_l150_m0_e0 | * | 96.3674 | 97.6729 | 95.0963 | 84.3053 | 11752 | 280 | 11752 | 606 | 137 | 22.6073 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3362 | 98.9137 | 99.7624 | 51.3621 | 11746 | 129 | 11756 | 28 | 14 | 50.0000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.9914 | 97.4553 | 98.5335 | 44.4822 | 10800 | 282 | 11758 | 175 | 165 | 94.2857 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4459 | 98.9979 | 99.8981 | 48.0313 | 11756 | 119 | 11761 | 12 | 6 | 50.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3872 | 99.0063 | 99.7710 | 48.5556 | 11757 | 118 | 11762 | 27 | 17 | 62.9630 | |
| dgrover-gatk | INDEL | I1_5 | HG002compoundhet | * | 96.3058 | 95.1360 | 97.5048 | 66.8717 | 11755 | 601 | 11762 | 301 | 300 | 99.6678 | |
| hfeng-pmm1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.4714 | 99.0316 | 99.9151 | 48.2190 | 11760 | 115 | 11765 | 10 | 7 | 70.0000 | |
| ndellapenna-hhga | SNP | * | map_l150_m2_e1 | homalt | 99.6950 | 99.4842 | 99.9066 | 72.4121 | 11766 | 61 | 11766 | 11 | 10 | 90.9091 | |
| bgallagher-sentieon | SNP | * | map_l150_m2_e1 | homalt | 99.6781 | 99.4927 | 99.8642 | 70.7146 | 11767 | 60 | 11767 | 16 | 12 | 75.0000 | |
| jli-custom | SNP | * | map_l150_m2_e1 | homalt | 99.7034 | 99.4927 | 99.9151 | 70.0155 | 11767 | 60 | 11767 | 10 | 10 | 100.0000 | |
| raldana-dualsentieon | SNP | * | map_l150_m2_e1 | homalt | 99.7077 | 99.5096 | 99.9066 | 69.9014 | 11769 | 58 | 11769 | 11 | 8 | 72.7273 | |
| astatham-gatk | SNP | ti | segdup | het | 98.8338 | 97.9219 | 99.7628 | 90.8470 | 11780 | 250 | 11778 | 28 | 2 | 7.1429 | |
| ltrigg-rtg2 | SNP | * | map_l150_m2_e1 | homalt | 99.7374 | 99.5434 | 99.9321 | 70.4609 | 11773 | 54 | 11779 | 8 | 7 | 87.5000 | |
| astatham-gatk | SNP | tv | map_l100_m1_e0 | het | 86.5303 | 76.4416 | 99.6869 | 75.5609 | 11785 | 3632 | 11781 | 37 | 10 | 27.0270 | |
| egarrison-hhga | SNP | * | map_l150_m2_e1 | homalt | 99.7799 | 99.6449 | 99.9152 | 73.3597 | 11785 | 42 | 11785 | 10 | 10 | 100.0000 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3467 | 99.2253 | 99.4684 | 49.9176 | 11783 | 92 | 11787 | 63 | 54 | 85.7143 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.2242 | 97.7347 | 98.7186 | 47.5188 | 11606 | 269 | 11787 | 153 | 107 | 69.9346 | |
| ltrigg-rtg1 | SNP | * | map_l150_m2_e1 | homalt | 99.7587 | 99.6280 | 99.8898 | 72.7027 | 11783 | 44 | 11789 | 13 | 13 | 100.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 83.7356 | 73.4530 | 97.3658 | 70.5818 | 11787 | 4260 | 11791 | 319 | 236 | 73.9812 | |
| hfeng-pmm3 | SNP | * | map_l150_m2_e1 | homalt | 99.7548 | 99.7379 | 99.7716 | 73.4338 | 11796 | 31 | 11796 | 27 | 10 | 37.0370 | |
| jlack-gatk | SNP | * | map_l150_m0_e0 | * | 93.9698 | 98.0635 | 90.2042 | 86.8496 | 11799 | 233 | 11796 | 1281 | 106 | 8.2748 | |
| hfeng-pmm1 | SNP | * | map_l150_m2_e1 | homalt | 99.7632 | 99.7548 | 99.7717 | 73.5145 | 11798 | 29 | 11798 | 27 | 10 | 37.0370 | |
| gduggal-bwafb | SNP | * | map_l150_m0_e0 | * | 98.2636 | 98.0635 | 98.4645 | 81.5621 | 11799 | 233 | 11799 | 184 | 58 | 31.5217 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.5149 | 99.3263 | 99.7043 | 51.4820 | 11795 | 80 | 11800 | 35 | 21 | 60.0000 | |
| hfeng-pmm2 | SNP | * | map_l150_m2_e1 | homalt | 99.7760 | 99.7886 | 99.7633 | 73.5353 | 11802 | 25 | 11802 | 28 | 11 | 39.2857 | |
| ciseli-custom | SNP | ti | segdup | het | 96.4948 | 98.3957 | 94.6659 | 91.6122 | 11837 | 193 | 11802 | 665 | 19 | 2.8571 | |
| jli-custom | SNP | * | map_l150_m0_e0 | * | 98.7204 | 98.1051 | 99.3435 | 75.0933 | 11804 | 228 | 11804 | 78 | 29 | 37.1795 | |
| gduggal-bwaplat | SNP | tv | map_l100_m2_e0 | het | 85.2808 | 74.8051 | 99.1683 | 86.8061 | 11802 | 3975 | 11804 | 99 | 19 | 19.1919 | |