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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13701-13750 / 86044 show all | |||||||||||||||
| jli-custom | SNP | ti | map_l250_m1_e0 | het | 97.6625 | 96.4286 | 98.9284 | 86.8086 | 2862 | 106 | 2862 | 31 | 16 | 51.6129 | |
| dgrover-gatk | SNP | tv | map_l250_m2_e1 | * | 98.1475 | 98.1139 | 98.1812 | 90.2264 | 2861 | 55 | 2861 | 53 | 12 | 22.6415 | |
| ckim-gatk | SNP | ti | map_l250_m2_e1 | * | 71.4464 | 56.3436 | 97.6109 | 96.1177 | 2860 | 2216 | 2860 | 70 | 9 | 12.8571 | |
| qzeng-custom | SNP | tv | map_l150_m2_e0 | homalt | 81.9655 | 70.0220 | 98.8211 | 73.9641 | 2859 | 1224 | 2850 | 34 | 34 | 100.0000 | |
| anovak-vg | SNP | tv | HG002compoundhet | homalt | 77.3553 | 84.3861 | 71.4060 | 43.1411 | 2859 | 529 | 2717 | 1088 | 616 | 56.6176 | |
| gduggal-snapvard | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 76.2490 | 94.7944 | 63.7727 | 85.1927 | 2859 | 157 | 2850 | 1619 | 31 | 1.9148 | |
| anovak-vg | SNP | ti | map_l250_m2_e1 | het | 72.2384 | 86.6323 | 61.9461 | 92.2704 | 2858 | 441 | 2852 | 1752 | 393 | 22.4315 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.3915 | 95.8068 | 99.0295 | 51.2175 | 2856 | 125 | 2857 | 28 | 23 | 82.1429 | |
| gduggal-snapplat | INDEL | D1_5 | map_siren | * | 85.8913 | 80.9294 | 91.5013 | 89.0859 | 2856 | 673 | 3273 | 304 | 56 | 18.4211 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 79.1116 | 70.1992 | 90.6162 | 65.8002 | 2855 | 1212 | 2897 | 300 | 268 | 89.3333 | |
| jmaeng-gatk | SNP | ti | map_l250_m2_e1 | * | 71.3857 | 56.2254 | 97.7397 | 96.1904 | 2854 | 2222 | 2854 | 66 | 8 | 12.1212 | |
| mlin-fermikit | INDEL | * | HG002complexvar | hetalt | 86.4462 | 77.1560 | 98.2798 | 67.7484 | 2854 | 845 | 3028 | 53 | 52 | 98.1132 | |
| qzeng-custom | SNP | tv | map_l150_m0_e0 | * | 79.1205 | 68.3277 | 93.9624 | 92.1942 | 2852 | 1322 | 2848 | 183 | 152 | 83.0601 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 87.1382 | 78.3947 | 98.0769 | 64.9494 | 2852 | 786 | 2856 | 56 | 50 | 89.2857 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 53.7099 | 42.3437 | 73.4172 | 63.2026 | 2851 | 3882 | 3850 | 1394 | 367 | 26.3271 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.6024 | 95.6055 | 99.6844 | 50.8784 | 2850 | 131 | 2843 | 9 | 6 | 66.6667 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.2521 | 95.5720 | 98.9924 | 51.2038 | 2849 | 132 | 2849 | 29 | 29 | 100.0000 | |
| raldana-dualsentieon | SNP | tv | map_l250_m2_e1 | * | 98.1230 | 97.7023 | 98.5472 | 88.2575 | 2849 | 67 | 2849 | 42 | 3 | 7.1429 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 69.6175 | 73.0888 | 66.4609 | 58.6501 | 2849 | 1049 | 4092 | 2065 | 1377 | 66.6828 | |
| jlack-gatk | SNP | tv | map_l250_m2_e1 | * | 92.1359 | 97.6337 | 87.2243 | 93.0989 | 2847 | 69 | 2847 | 417 | 24 | 5.7554 | |
| gduggal-snapvard | SNP | ti | map_l250_m1_e0 | het | 81.6091 | 95.8895 | 71.0309 | 92.1854 | 2846 | 122 | 2832 | 1155 | 61 | 5.2814 | |
| rpoplin-dv42 | SNP | tv | map_l250_m2_e1 | * | 97.9690 | 97.5995 | 98.3414 | 87.6309 | 2846 | 70 | 2846 | 48 | 32 | 66.6667 | |
| egarrison-hhga | SNP | tv | map_l250_m2_e1 | * | 98.5286 | 97.5995 | 99.4757 | 87.5868 | 2846 | 70 | 2846 | 15 | 7 | 46.6667 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 75.1577 | 77.7747 | 72.7110 | 36.3946 | 2845 | 813 | 4074 | 1529 | 1142 | 74.6893 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 85.8273 | 81.4433 | 90.7101 | 41.4412 | 2844 | 648 | 7128 | 730 | 664 | 90.9589 | |
| ndellapenna-hhga | SNP | ti | map_l250_m1_e0 | het | 97.6313 | 95.8221 | 99.5101 | 88.0937 | 2844 | 124 | 2844 | 14 | 6 | 42.8571 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 43.5741 | 29.8498 | 80.6598 | 59.0401 | 2842 | 6679 | 2836 | 680 | 595 | 87.5000 | |
| ckim-dragen | SNP | tv | map_l250_m2_e1 | * | 97.2113 | 97.4280 | 96.9956 | 89.9894 | 2841 | 75 | 2841 | 88 | 12 | 13.6364 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 0.0000 | 59.5348 | 0.0000 | 0.0000 | 2841 | 1931 | 0 | 0 | 0 | ||
| ghariani-varprowl | SNP | tv | map_l250_m2_e1 | * | 94.5092 | 97.3937 | 91.7906 | 91.6664 | 2840 | 76 | 2840 | 254 | 35 | 13.7795 | |
| bgallagher-sentieon | SNP | tv | map_l250_m2_e0 | * | 98.1510 | 98.5427 | 97.7625 | 89.3375 | 2840 | 42 | 2840 | 65 | 13 | 20.0000 | |
| hfeng-pmm3 | SNP | tv | map_l250_m2_e0 | * | 98.7483 | 98.5427 | 98.9547 | 88.3900 | 2840 | 42 | 2840 | 30 | 4 | 13.3333 | |
| gduggal-bwavard | SNP | tv | map_l250_m2_e1 | * | 88.9493 | 97.3937 | 81.8524 | 91.9441 | 2840 | 76 | 2828 | 627 | 17 | 2.7113 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 91.1773 | 86.7440 | 96.0881 | 48.8639 | 2840 | 434 | 2530 | 103 | 98 | 95.1456 | |
| mlin-fermikit | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 95.8650 | 94.1645 | 97.6281 | 70.2647 | 2840 | 176 | 2840 | 69 | 8 | 11.5942 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 94.5857 | 90.9615 | 98.5106 | 44.8835 | 2838 | 282 | 2844 | 43 | 39 | 90.6977 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.1586 | 95.2030 | 99.1964 | 50.6041 | 2838 | 143 | 2839 | 23 | 18 | 78.2609 | |
| ghariani-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 43.4757 | 29.7973 | 80.3688 | 59.6728 | 2837 | 6684 | 2833 | 692 | 587 | 84.8266 | |
| gduggal-snapplat | SNP | ti | map_l250_m2_e1 | het | 88.7384 | 85.9654 | 91.6963 | 94.7638 | 2836 | 463 | 2838 | 257 | 134 | 52.1401 | |
| hfeng-pmm2 | SNP | tv | map_l250_m2_e0 | * | 98.3016 | 98.4039 | 98.1994 | 89.7037 | 2836 | 46 | 2836 | 52 | 7 | 13.4615 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 49.4454 | 86.5913 | 34.6019 | 50.3848 | 2835 | 439 | 2855 | 5396 | 5373 | 99.5738 | |
| jli-custom | SNP | tv | map_l250_m2_e1 | * | 98.1308 | 97.2222 | 99.0566 | 86.1913 | 2835 | 81 | 2835 | 27 | 12 | 44.4444 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.0062 | 95.1023 | 98.9878 | 50.0871 | 2835 | 146 | 2836 | 29 | 24 | 82.7586 | |
| cchapple-custom | SNP | ti | map_l250_m1_e0 | het | 95.4232 | 95.5189 | 95.3277 | 91.2575 | 2835 | 133 | 2836 | 139 | 37 | 26.6187 | |
| ckim-vqsr | SNP | * | map_l250_m2_e1 | het | 69.4427 | 53.8564 | 97.7249 | 97.1454 | 2835 | 2429 | 2835 | 66 | 0 | 0.0000 | |
| qzeng-custom | INDEL | * | map_l100_m1_e0 | * | 83.9800 | 79.0296 | 89.5920 | 87.4621 | 2834 | 752 | 3667 | 426 | 66 | 15.4930 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 96.9709 | 95.0352 | 98.9871 | 50.1046 | 2833 | 148 | 2834 | 29 | 24 | 82.7586 | |
| hfeng-pmm1 | SNP | tv | map_l250_m2_e0 | * | 98.5906 | 98.2998 | 98.8831 | 88.2437 | 2833 | 49 | 2833 | 32 | 7 | 21.8750 | |
| asubramanian-gatk | SNP | tv | map_l150_m2_e1 | * | 39.5063 | 24.6305 | 99.7534 | 94.8804 | 2833 | 8669 | 2832 | 7 | 1 | 14.2857 | |
| eyeh-varpipe | SNP | tv | map_l150_m0_e0 | het | 93.9083 | 99.6483 | 88.7937 | 84.1222 | 2833 | 10 | 2797 | 353 | 7 | 1.9830 | |