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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
19501-19550 / 86044 show all | |||||||||||||||
| jlack-gatk | SNP | ti | map_l150_m2_e0 | homalt | 99.0801 | 98.2931 | 99.8799 | 71.3088 | 7486 | 130 | 7486 | 9 | 7 | 77.7778 | |
| dgrover-gatk | SNP | tv | map_l250_m2_e0 | homalt | 98.9259 | 98.2924 | 99.5676 | 86.6638 | 921 | 16 | 921 | 4 | 3 | 75.0000 | |
| dgrover-gatk | INDEL | * | map_l125_m2_e1 | * | 98.3157 | 98.2921 | 98.3393 | 89.1708 | 2187 | 38 | 2191 | 37 | 8 | 21.6216 | |
| jli-custom | INDEL | * | map_l125_m2_e1 | * | 98.5806 | 98.2921 | 98.8708 | 86.7884 | 2187 | 38 | 2189 | 25 | 8 | 32.0000 | |
| jlack-gatk | INDEL | * | map_l125_m1_e0 | * | 94.7690 | 98.2914 | 91.4903 | 90.0770 | 2071 | 36 | 2075 | 193 | 12 | 6.2176 | |
| dgrover-gatk | INDEL | * | map_l125_m1_e0 | * | 98.3163 | 98.2914 | 98.3412 | 88.3670 | 2071 | 36 | 2075 | 35 | 8 | 22.8571 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.9354 | 98.2913 | 99.5879 | 51.8136 | 3624 | 63 | 3625 | 15 | 11 | 73.3333 | |
| gduggal-snapfb | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | * | 73.6686 | 98.2908 | 58.9111 | 74.8889 | 4773 | 83 | 4826 | 3366 | 126 | 3.7433 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 97.1554 | 98.2906 | 96.0462 | 69.4738 | 4370 | 76 | 4324 | 178 | 168 | 94.3820 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.1703 | 98.2906 | 98.0503 | 64.7824 | 4370 | 76 | 4325 | 86 | 81 | 94.1860 | |
| ltrigg-rtg1 | SNP | ti | map_l100_m1_e0 | het | 99.0192 | 98.2900 | 99.7593 | 54.6205 | 29430 | 512 | 29432 | 71 | 7 | 9.8592 | |
| gduggal-bwavard | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.8586 | 98.2884 | 99.4354 | 55.5329 | 16883 | 294 | 16730 | 95 | 59 | 62.1053 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 99.1364 | 98.2877 | 100.0000 | 18.5552 | 574 | 10 | 575 | 0 | 0 | ||
| gduggal-bwafb | INDEL | D1_5 | map_siren | het | 98.2729 | 98.2872 | 98.2586 | 80.4710 | 2238 | 39 | 2257 | 40 | 2 | 5.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | map_siren | het | 98.8087 | 98.2872 | 99.3357 | 77.5055 | 2238 | 39 | 2243 | 15 | 0 | 0.0000 | |
| hfeng-pmm2 | SNP | ti | map_l250_m0_e0 | het | 97.6596 | 98.2869 | 97.0402 | 94.0240 | 918 | 16 | 918 | 28 | 3 | 10.7143 | |
| hfeng-pmm3 | SNP | ti | map_l250_m0_e0 | het | 98.2343 | 98.2869 | 98.1818 | 93.2251 | 918 | 16 | 918 | 17 | 1 | 5.8824 | |
| ckim-vqsr | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.8343 | 98.2863 | 99.3884 | 71.8022 | 975 | 17 | 975 | 6 | 2 | 33.3333 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.4366 | 98.2863 | 98.5874 | 60.3465 | 15772 | 275 | 15773 | 226 | 212 | 93.8053 | |
| jli-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.0403 | 98.2857 | 99.8066 | 60.5344 | 1032 | 18 | 1032 | 2 | 2 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | segdup | * | 99.1354 | 98.2857 | 100.0000 | 92.5444 | 172 | 3 | 172 | 0 | 0 | ||
| jmaeng-gatk | INDEL | I6_15 | segdup | * | 97.4504 | 98.2857 | 96.6292 | 94.0168 | 172 | 3 | 172 | 6 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | segdup | * | 98.8506 | 98.2857 | 99.4220 | 92.6819 | 172 | 3 | 172 | 1 | 0 | 0.0000 | |
| cchapple-custom | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.6758 | 98.2850 | 99.0698 | 67.8831 | 1490 | 26 | 1491 | 14 | 1 | 7.1429 | |
| eyeh-varpipe | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 91.5507 | 98.2850 | 85.6800 | 74.8152 | 1490 | 26 | 1430 | 239 | 16 | 6.6946 | |
| ndellapenna-hhga | INDEL | I1_5 | HG002complexvar | het | 98.8489 | 98.2847 | 99.4197 | 54.6026 | 17877 | 312 | 17818 | 104 | 33 | 31.7308 | |
| ciseli-custom | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 91.8911 | 98.2843 | 86.2787 | 74.9189 | 1203 | 21 | 1201 | 191 | 49 | 25.6545 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.0944 | 98.2843 | 99.9179 | 60.1440 | 1203 | 21 | 1217 | 1 | 1 | 100.0000 | |
| ciseli-custom | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 90.8951 | 98.2838 | 84.5396 | 75.5036 | 1718 | 30 | 1717 | 314 | 68 | 21.6561 | |
| egarrison-hhga | INDEL | * | map_l100_m2_e1 | homalt | 98.5133 | 98.2826 | 98.7451 | 83.8095 | 1259 | 22 | 1259 | 16 | 9 | 56.2500 | |
| ciseli-custom | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 88.4490 | 98.2824 | 80.4044 | 77.2309 | 515 | 9 | 517 | 126 | 19 | 15.0794 | |
| ltrigg-rtg2 | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 99.1338 | 98.2824 | 100.0000 | 60.8029 | 515 | 9 | 537 | 0 | 0 | ||
| ndellapenna-hhga | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 98.5635 | 98.2824 | 98.8462 | 65.4025 | 515 | 9 | 514 | 6 | 5 | 83.3333 | |
| hfeng-pmm1 | INDEL | I1_5 | map_l100_m1_e0 | * | 98.7628 | 98.2823 | 99.2481 | 82.0270 | 1316 | 23 | 1320 | 10 | 4 | 40.0000 | |
| ndellapenna-hhga | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.5750 | 98.2820 | 98.8697 | 60.9705 | 1659 | 29 | 1662 | 19 | 15 | 78.9474 | |
| jlack-gatk | SNP | ti | map_l250_m1_e0 | het | 91.8885 | 98.2817 | 86.2762 | 93.7627 | 2917 | 51 | 2917 | 464 | 39 | 8.4052 | |
| hfeng-pmm2 | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.9345 | 98.2816 | 99.5962 | 71.4015 | 92826 | 1623 | 92734 | 376 | 307 | 81.6489 | |
| qzeng-custom | INDEL | * | * | het | 97.1762 | 98.2811 | 96.0960 | 58.8639 | 190796 | 3337 | 217691 | 8844 | 3946 | 44.6178 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l125_m1_e0 | homalt | 98.8473 | 98.2808 | 99.4203 | 83.7952 | 343 | 6 | 343 | 2 | 2 | 100.0000 | |
| eyeh-varpipe | INDEL | D1_5 | map_l125_m1_e0 | homalt | 97.9462 | 98.2808 | 97.6139 | 87.6142 | 343 | 6 | 450 | 11 | 10 | 90.9091 | |
| jmaeng-gatk | INDEL | D1_5 | map_l125_m1_e0 | homalt | 98.8473 | 98.2808 | 99.4203 | 85.4859 | 343 | 6 | 343 | 2 | 2 | 100.0000 | |
| gduggal-bwafb | SNP | tv | map_l125_m0_e0 | * | 98.0737 | 98.2808 | 97.8675 | 77.6619 | 6517 | 114 | 6517 | 142 | 29 | 20.4225 | |
| hfeng-pmm2 | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.0524 | 98.2806 | 99.8365 | 59.1178 | 34810 | 609 | 34800 | 57 | 5 | 8.7719 | |
| ltrigg-rtg1 | SNP | * | map_l100_m1_e0 | het | 98.9962 | 98.2804 | 99.7226 | 54.6285 | 44579 | 780 | 44576 | 124 | 12 | 9.6774 | |
| mlin-fermikit | SNP | tv | HG002complexvar | homalt | 98.2029 | 98.2799 | 98.1261 | 24.4893 | 93475 | 1636 | 93471 | 1785 | 1729 | 96.8627 | |
| ltrigg-rtg1 | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 98.8948 | 98.2790 | 99.5183 | 82.2625 | 1085 | 19 | 1033 | 5 | 0 | 0.0000 | |
| ndellapenna-hhga | SNP | * | map_l150_m1_e0 | * | 99.0061 | 98.2783 | 99.7447 | 72.1099 | 30082 | 527 | 30082 | 77 | 40 | 51.9481 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.6542 | 98.2774 | 99.0338 | 56.4448 | 16146 | 283 | 16093 | 157 | 70 | 44.5860 | |
| hfeng-pmm2 | INDEL | * | map_l125_m1_e0 | het | 97.7323 | 98.2772 | 97.1935 | 88.0494 | 1312 | 23 | 1316 | 38 | 3 | 7.8947 | |
| mlin-fermikit | SNP | ti | * | * | 98.9073 | 98.2768 | 99.5460 | 14.9446 | 2049581 | 35937 | 2049572 | 9348 | 8085 | 86.4891 | |