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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
25001-25050 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 97.6276 | 96.6102 | 98.6667 | 60.1064 | 57 | 2 | 74 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.2759 | 96.6102 | 100.0000 | 70.4663 | 171 | 6 | 171 | 0 | 0 | ||
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 97.5769 | 96.6102 | 98.5632 | 70.4835 | 342 | 12 | 343 | 5 | 5 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 91.9355 | 96.6102 | 87.6923 | 76.1029 | 57 | 2 | 57 | 8 | 8 | 100.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 93.4426 | 96.6102 | 90.4762 | 76.4045 | 57 | 2 | 57 | 6 | 6 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 91.9355 | 96.6102 | 87.6923 | 75.7463 | 57 | 2 | 57 | 8 | 8 | 100.0000 | |
| gduggal-snapvard | SNP | tv | map_l150_m2_e0 | * | 91.6223 | 96.6094 | 87.1248 | 82.6892 | 10970 | 385 | 10942 | 1617 | 102 | 6.3080 | |
| gduggal-snapvard | SNP | tv | map_l150_m2_e1 | * | 91.6730 | 96.6093 | 87.2166 | 82.7232 | 11112 | 390 | 11080 | 1624 | 104 | 6.4039 | |
| ciseli-custom | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | het | 82.5695 | 96.6091 | 72.0927 | 44.6474 | 4530 | 159 | 4544 | 1759 | 24 | 1.3644 | |
| eyeh-varpipe | INDEL | * | map_l150_m1_e0 | het | 96.7203 | 96.6082 | 96.8326 | 87.6550 | 826 | 29 | 1070 | 35 | 18 | 51.4286 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 96.6577 | 96.6080 | 96.7075 | 54.0122 | 14269 | 501 | 14216 | 484 | 156 | 32.2314 | |
| jli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.4310 | 96.6068 | 98.2694 | 64.7012 | 3929 | 138 | 3918 | 69 | 61 | 88.4058 | |
| anovak-vg | SNP | * | HG002complexvar | het | 97.3572 | 96.6062 | 98.1199 | 19.3647 | 449702 | 15798 | 439022 | 8412 | 6308 | 74.9881 | |
| ckim-vqsr | INDEL | * | map_siren | het | 97.3739 | 96.6060 | 98.1540 | 87.1388 | 4355 | 153 | 4360 | 82 | 11 | 13.4146 | |
| ndellapenna-hhga | SNP | tv | map_l250_m2_e1 | * | 97.9485 | 96.6049 | 99.3300 | 87.0027 | 2817 | 99 | 2817 | 19 | 10 | 52.6316 | |
| cchapple-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 97.3086 | 96.6046 | 98.0229 | 87.6589 | 882 | 31 | 942 | 19 | 9 | 47.3684 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 83.7882 | 96.6046 | 73.9742 | 88.0348 | 882 | 31 | 631 | 222 | 19 | 8.5586 | |
| ckim-isaac | SNP | * | segdup | * | 98.2480 | 96.6046 | 99.9484 | 87.4705 | 27114 | 953 | 27116 | 14 | 7 | 50.0000 | |
| gduggal-snapvard | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.0218 | 96.6030 | 99.4830 | 58.8566 | 9754 | 343 | 9622 | 50 | 26 | 52.0000 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 94.4480 | 96.6024 | 92.3875 | 77.6266 | 2104 | 74 | 1869 | 154 | 140 | 90.9091 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 98.0672 | 96.6017 | 99.5778 | 24.0929 | 6595 | 232 | 6604 | 28 | 27 | 96.4286 | |
| jlack-gatk | SNP | tv | map_l250_m0_e0 | * | 89.3051 | 96.6013 | 83.0337 | 95.8027 | 739 | 26 | 739 | 151 | 9 | 5.9603 | |
| raldana-dualsentieon | SNP | tv | map_l250_m0_e0 | * | 97.1091 | 96.6013 | 97.6222 | 91.9886 | 739 | 26 | 739 | 18 | 2 | 11.1111 | |
| egarrison-hhga | SNP | tv | map_l250_m0_e0 | * | 97.8160 | 96.6013 | 99.0617 | 92.0849 | 739 | 26 | 739 | 7 | 3 | 42.8571 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.4939 | 96.6013 | 98.4032 | 85.1394 | 1478 | 52 | 1479 | 24 | 16 | 66.6667 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.4939 | 96.6013 | 98.4032 | 85.1394 | 1478 | 52 | 1479 | 24 | 16 | 66.6667 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.7526 | 96.6010 | 98.9320 | 70.8092 | 29444 | 1036 | 28994 | 313 | 239 | 76.3578 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.7526 | 96.6010 | 98.9320 | 70.8092 | 29444 | 1036 | 28994 | 313 | 239 | 76.3578 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.8839 | 96.6007 | 99.2017 | 74.1149 | 1904 | 67 | 1864 | 15 | 8 | 53.3333 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.8839 | 96.6007 | 99.2017 | 74.1149 | 1904 | 67 | 1864 | 15 | 8 | 53.3333 | |
| jpowers-varprowl | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.2010 | 96.5997 | 95.8055 | 76.3827 | 2983 | 105 | 3015 | 132 | 4 | 3.0303 | |
| gduggal-snapfb | INDEL | D1_5 | map_l125_m1_e0 | * | 95.8482 | 96.5993 | 95.1087 | 86.1498 | 1051 | 37 | 1050 | 54 | 9 | 16.6667 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.8137 | 96.5992 | 99.0592 | 63.6797 | 6107 | 215 | 6107 | 58 | 48 | 82.7586 | |
| dgrover-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.8137 | 96.5992 | 99.0592 | 63.6797 | 6107 | 215 | 6107 | 58 | 48 | 82.7586 | |
| astatham-gatk | INDEL | * | map_l125_m0_e0 | * | 96.6572 | 96.5986 | 96.7157 | 90.5095 | 852 | 30 | 854 | 29 | 6 | 20.6897 | |
| raldana-dualsentieon | INDEL | * | map_l125_m0_e0 | * | 96.9865 | 96.5986 | 97.3774 | 87.3376 | 852 | 30 | 854 | 23 | 3 | 13.0435 | |
| hfeng-pmm1 | INDEL | * | map_l125_m0_e0 | * | 97.4847 | 96.5986 | 98.3871 | 87.4093 | 852 | 30 | 854 | 14 | 4 | 28.5714 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 92.5136 | 96.5980 | 88.7606 | 66.4930 | 17548 | 618 | 17524 | 2219 | 2149 | 96.8454 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 92.5136 | 96.5980 | 88.7606 | 66.4930 | 17548 | 618 | 17524 | 2219 | 2149 | 96.8454 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.6195 | 96.5975 | 98.6634 | 57.7294 | 15501 | 546 | 15502 | 210 | 201 | 95.7143 | |
| cchapple-custom | INDEL | I16_PLUS | * | * | 97.5144 | 96.5971 | 98.4493 | 68.4041 | 6160 | 217 | 6666 | 105 | 85 | 80.9524 | |
| gduggal-snapfb | INDEL | D1_5 | map_l125_m2_e0 | het | 95.1644 | 96.5969 | 93.7738 | 84.6289 | 738 | 26 | 738 | 49 | 6 | 12.2449 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 96.2011 | 96.5962 | 95.8091 | 80.4640 | 823 | 29 | 823 | 36 | 31 | 86.1111 | |
| eyeh-varpipe | INDEL | D1_5 | map_l100_m2_e1 | * | 96.9835 | 96.5962 | 97.3739 | 84.0045 | 1873 | 66 | 2336 | 63 | 38 | 60.3175 | |
| cchapple-custom | INDEL | I1_5 | map_l100_m2_e0 | het | 96.5400 | 96.5952 | 96.4848 | 85.2941 | 766 | 27 | 796 | 29 | 8 | 27.5862 | |
| hfeng-pmm1 | INDEL | * | map_l150_m2_e1 | * | 97.5801 | 96.5949 | 98.5856 | 88.8230 | 1390 | 49 | 1394 | 20 | 4 | 20.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | * | * | 96.9778 | 96.5949 | 97.3637 | 71.3383 | 6553 | 231 | 6537 | 177 | 130 | 73.4463 | |
| gduggal-snapvard | SNP | ti | map_l125_m2_e1 | het | 91.7986 | 96.5945 | 87.4564 | 82.3224 | 18437 | 650 | 18295 | 2624 | 207 | 7.8887 | |
| gduggal-bwaplat | SNP | * | HG002complexvar | homalt | 98.2316 | 96.5943 | 99.9253 | 21.0137 | 278746 | 9828 | 278424 | 208 | 186 | 89.4231 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 97.9056 | 96.5937 | 99.2537 | 71.5700 | 397 | 14 | 399 | 3 | 3 | 100.0000 | |