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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
74251-74300 / 86044 show all | |||||||||||||||
| gduggal-snapvard | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.6335 | 98.6470 | 98.6200 | 49.6901 | 4010 | 55 | 4002 | 56 | 5 | 8.9286 | |
| ckim-vqsr | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.7260 | 99.8005 | 99.6515 | 49.5605 | 4003 | 8 | 4003 | 14 | 2 | 14.2857 | |
| hfeng-pmm3 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.1373 | 96.5750 | 99.7509 | 81.8576 | 4004 | 142 | 4004 | 10 | 3 | 30.0000 | |
| raldana-dualsentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.0772 | 96.5750 | 99.6268 | 81.0951 | 4004 | 142 | 4004 | 15 | 7 | 46.6667 | |
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.7012 | 99.8255 | 99.5772 | 47.7317 | 4004 | 7 | 4004 | 17 | 0 | 0.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.8006 | 99.8255 | 99.7757 | 49.8187 | 4004 | 7 | 4004 | 9 | 1 | 11.1111 | |
| dgrover-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.7261 | 99.8504 | 99.6021 | 48.7836 | 4005 | 6 | 4005 | 16 | 1 | 6.2500 | |
| ciseli-custom | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 96.3834 | 97.8844 | 94.9277 | 48.0419 | 3979 | 86 | 4005 | 214 | 3 | 1.4019 | |
| ckim-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.7261 | 99.8504 | 99.6021 | 49.5356 | 4005 | 6 | 4005 | 16 | 2 | 12.5000 | |
| ghariani-varprowl | SNP | tv | map_l150_m2_e0 | homalt | 98.6939 | 98.0896 | 99.3057 | 75.8431 | 4005 | 78 | 4005 | 28 | 15 | 53.5714 | |
| bgallagher-sentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.7634 | 99.8753 | 99.6517 | 47.8261 | 4006 | 5 | 4006 | 14 | 0 | 0.0000 | |
| rpoplin-dv42 | SNP | * | map_l150_m0_e0 | homalt | 98.7551 | 97.9702 | 99.5527 | 75.0450 | 4006 | 83 | 4006 | 18 | 17 | 94.4444 | |
| jlack-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.6270 | 99.8753 | 99.3798 | 50.2161 | 4006 | 5 | 4006 | 25 | 1 | 4.0000 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 76.6168 | 62.5327 | 98.8894 | 32.4892 | 4306 | 2580 | 4007 | 45 | 40 | 88.8889 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 98.7659 | 98.1114 | 99.4293 | 42.4615 | 4000 | 77 | 4007 | 23 | 16 | 69.5652 | |
| gduggal-bwafb | INDEL | I6_15 | HG002complexvar | * | 87.6466 | 81.2187 | 95.1793 | 49.2161 | 3892 | 900 | 4008 | 203 | 196 | 96.5517 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 82.5487 | 75.1600 | 91.5487 | 63.9730 | 3994 | 1320 | 4008 | 370 | 366 | 98.9189 | |
| jpowers-varprowl | SNP | tv | map_l150_m2_e0 | homalt | 98.7557 | 98.1631 | 99.3555 | 77.7336 | 4008 | 75 | 4008 | 26 | 16 | 61.5385 | |
| astatham-gatk | SNP | * | map_l150_m0_e0 | homalt | 98.8775 | 98.0191 | 99.7511 | 73.7506 | 4008 | 81 | 4008 | 10 | 9 | 90.0000 | |
| gduggal-bwavard | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.0866 | 98.7946 | 99.3804 | 48.6184 | 4016 | 49 | 4010 | 25 | 11 | 44.0000 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 86.9148 | 78.4053 | 97.4964 | 52.0513 | 4012 | 1105 | 4011 | 103 | 89 | 86.4078 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 63.1364 | 48.1459 | 91.6819 | 62.9404 | 4025 | 4335 | 4012 | 364 | 316 | 86.8132 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 63.1364 | 48.1459 | 91.6819 | 62.9404 | 4025 | 4335 | 4012 | 364 | 316 | 86.8132 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 63.0485 | 48.1459 | 91.3123 | 63.3492 | 4025 | 4335 | 4015 | 382 | 317 | 82.9843 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 63.0485 | 48.1459 | 91.3123 | 63.3492 | 4025 | 4335 | 4015 | 382 | 317 | 82.9843 | |
| gduggal-bwavard | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 92.4479 | 95.7527 | 89.3636 | 86.9652 | 4058 | 180 | 4016 | 478 | 89 | 18.6192 | |
| eyeh-varpipe | SNP | ti | HG002compoundhet | het | 95.2908 | 98.8427 | 91.9853 | 54.7039 | 9395 | 110 | 4017 | 350 | 50 | 14.2857 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 81.2086 | 91.0256 | 73.3029 | 53.9573 | 4047 | 399 | 4017 | 1463 | 1454 | 99.3848 | |
| asubramanian-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.4061 | 98.8192 | 100.0000 | 47.1948 | 4017 | 48 | 4019 | 0 | 0 | ||
| jlack-gatk | SNP | tv | map_l150_m2_e0 | homalt | 99.1124 | 98.4570 | 99.7766 | 72.3207 | 4020 | 63 | 4020 | 9 | 6 | 66.6667 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.3962 | 98.9698 | 99.8262 | 37.7685 | 4035 | 42 | 4020 | 7 | 2 | 28.5714 | |
| ltrigg-rtg1 | SNP | tv | map_l150_m0_e0 | * | 97.9546 | 96.3824 | 99.5789 | 69.3400 | 4023 | 151 | 4020 | 17 | 4 | 23.5294 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 90.6695 | 93.1741 | 88.2960 | 82.0927 | 3863 | 283 | 4021 | 533 | 266 | 49.9062 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 32.4738 | 29.1984 | 36.5769 | 50.5553 | 4025 | 9760 | 4022 | 6974 | 6937 | 99.4695 | |
| astatham-gatk | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.4684 | 98.9668 | 99.9751 | 45.9140 | 4023 | 42 | 4023 | 1 | 0 | 0.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | * | * | 61.7015 | 59.1244 | 64.5135 | 70.3568 | 4011 | 2773 | 4025 | 2214 | 2123 | 95.8898 | |
| gduggal-bwafb | SNP | * | map_l150_m0_e0 | homalt | 99.1750 | 98.4837 | 99.8760 | 78.3354 | 4027 | 62 | 4027 | 5 | 4 | 80.0000 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 85.7525 | 99.1025 | 75.5722 | 63.2591 | 3975 | 36 | 4028 | 1302 | 33 | 2.5346 | |
| gduggal-bwavard | SNP | tv | map_l150_m2_e1 | homalt | 98.7655 | 97.7504 | 99.8019 | 73.3170 | 4041 | 93 | 4031 | 8 | 6 | 75.0000 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 90.3941 | 93.8999 | 87.1407 | 79.9532 | 4033 | 262 | 4032 | 595 | 11 | 1.8487 | |
| ltrigg-rtg2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 99.1258 | 98.3867 | 99.8761 | 42.1136 | 3964 | 65 | 4032 | 5 | 5 | 100.0000 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 91.7774 | 93.1267 | 90.4666 | 45.7994 | 691 | 51 | 4033 | 425 | 374 | 88.0000 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 76.5171 | 62.3875 | 98.9208 | 32.6004 | 4296 | 2590 | 4033 | 44 | 40 | 90.9091 | |
| rpoplin-dv42 | SNP | tv | map_l150_m2_e0 | homalt | 99.2738 | 98.7754 | 99.7773 | 74.0315 | 4033 | 50 | 4033 | 9 | 9 | 100.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 81.2908 | 70.4641 | 96.0486 | 65.7173 | 4039 | 1693 | 4035 | 166 | 29 | 17.4699 | |
| astatham-gatk | SNP | tv | map_l150_m2_e0 | homalt | 99.3231 | 98.8244 | 99.8268 | 71.2518 | 4035 | 48 | 4035 | 7 | 5 | 71.4286 | |
| jpowers-varprowl | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.3721 | 99.2620 | 99.4824 | 48.6065 | 4035 | 30 | 4036 | 21 | 4 | 19.0476 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 95.8427 | 93.9232 | 97.8424 | 72.3914 | 4034 | 261 | 4036 | 89 | 6 | 6.7416 | |
| eyeh-varpipe | SNP | tv | map_l150_m2_e0 | homalt | 99.7787 | 99.7306 | 99.8269 | 76.3785 | 4072 | 11 | 4037 | 7 | 3 | 42.8571 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6187 | 99.3868 | 99.8516 | 38.0325 | 4052 | 25 | 4038 | 6 | 2 | 33.3333 | |