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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
77851-77900 / 86044 show all | |||||||||||||||
| eyeh-varpipe | INDEL | * | map_siren | * | 94.7665 | 94.1296 | 95.4122 | 91.1520 | 6975 | 435 | 7882 | 379 | 279 | 73.6148 | |
| hfeng-pmm1 | SNP | * | map_l250_m2_e1 | * | 98.8775 | 98.7104 | 99.0452 | 88.5497 | 7884 | 103 | 7884 | 76 | 17 | 22.3684 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 85.5433 | 76.2190 | 97.4669 | 52.9093 | 7894 | 2463 | 7888 | 205 | 168 | 81.9512 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 89.5657 | 94.4378 | 85.1716 | 64.2887 | 7895 | 465 | 7892 | 1374 | 1219 | 88.7191 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 89.5657 | 94.4378 | 85.1716 | 64.2887 | 7895 | 465 | 7892 | 1374 | 1219 | 88.7191 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.2498 | 93.8518 | 98.7735 | 62.0410 | 7892 | 517 | 7892 | 98 | 83 | 84.6939 | |
| ltrigg-rtg2 | SNP | ti | map_l125_m0_e0 | het | 97.6557 | 95.5343 | 99.8735 | 55.0552 | 7894 | 369 | 7894 | 10 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | * | map_l250_m2_e1 | * | 98.4903 | 98.8356 | 98.1475 | 89.5400 | 7894 | 93 | 7894 | 149 | 32 | 21.4765 | |
| jmaeng-gatk | INDEL | I6_15 | * | hetalt | 95.7466 | 91.8723 | 99.9620 | 36.0612 | 7856 | 695 | 7896 | 3 | 2 | 66.6667 | |
| hfeng-pmm2 | SNP | * | map_l250_m2_e1 | * | 98.6325 | 98.8857 | 98.3807 | 89.9200 | 7898 | 89 | 7898 | 130 | 16 | 12.3077 | |
| gduggal-bwaplat | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 87.7025 | 78.2609 | 99.7349 | 69.6723 | 7902 | 2195 | 7900 | 21 | 19 | 90.4762 | |
| ckim-vqsr | SNP | ti | map_l100_m1_e0 | homalt | 61.0965 | 43.9922 | 99.9620 | 75.5921 | 7901 | 10059 | 7901 | 3 | 3 | 100.0000 | |
| hfeng-pmm3 | SNP | * | map_l250_m2_e1 | * | 99.0226 | 98.9358 | 99.1095 | 88.7342 | 7902 | 85 | 7902 | 71 | 9 | 12.6761 | |
| gduggal-bwaplat | SNP | ti | map_l150_m2_e1 | het | 75.2791 | 60.6685 | 99.1595 | 91.7406 | 7896 | 5119 | 7904 | 67 | 22 | 32.8358 | |
| ckim-isaac | SNP | ti | HG002compoundhet | het | 88.4015 | 80.2104 | 98.4558 | 36.9008 | 7624 | 1881 | 7906 | 124 | 19 | 15.3226 | |
| ciseli-custom | SNP | tv | map_l100_m1_e0 | homalt | 89.0533 | 87.6147 | 90.5399 | 62.3935 | 7923 | 1120 | 7915 | 827 | 623 | 75.3325 | |
| ckim-vqsr | INDEL | I6_15 | HG002compoundhet | hetalt | 95.9547 | 92.2455 | 99.9747 | 28.2465 | 7875 | 662 | 7916 | 2 | 2 | 100.0000 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 50.1585 | 49.1836 | 51.1729 | 59.7079 | 7892 | 8154 | 7919 | 7556 | 5150 | 68.1578 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.6737 | 94.1848 | 99.2978 | 59.9146 | 7920 | 489 | 7919 | 56 | 51 | 91.0714 | |
| gduggal-snapfb | SNP | ti | map_l125_m0_e0 | het | 95.0321 | 95.8369 | 94.2408 | 72.9383 | 7919 | 344 | 7920 | 484 | 255 | 52.6860 | |
| gduggal-snapplat | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 87.3659 | 78.3797 | 98.6795 | 72.5835 | 7914 | 2183 | 7921 | 106 | 54 | 50.9434 | |
| ckim-gatk | INDEL | I6_15 | HG002compoundhet | hetalt | 95.9864 | 92.3041 | 99.9748 | 28.2337 | 7880 | 657 | 7921 | 2 | 2 | 100.0000 | |
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 84.8964 | 75.6945 | 96.6451 | 41.6459 | 7929 | 2546 | 7922 | 275 | 269 | 97.8182 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.2270 | 94.3394 | 98.1917 | 57.1762 | 7933 | 476 | 7928 | 146 | 103 | 70.5479 | |
| rpoplin-dv42 | INDEL | I6_15 | HG002compoundhet | * | 93.3249 | 90.3259 | 96.5299 | 36.1005 | 7927 | 849 | 7928 | 285 | 281 | 98.5965 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.9633 | 96.4517 | 99.5230 | 36.1107 | 7883 | 290 | 7929 | 38 | 38 | 100.0000 | |
| ckim-vqsr | INDEL | I6_15 | * | hetalt | 95.9384 | 92.2582 | 99.9244 | 35.7201 | 7889 | 662 | 7930 | 6 | 5 | 83.3333 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.3952 | 94.2799 | 98.6075 | 61.7292 | 7928 | 481 | 7931 | 112 | 102 | 91.0714 | |
| mlin-fermikit | SNP | * | map_l150_m2_e1 | het | 55.7873 | 38.9825 | 98.0593 | 70.1751 | 7938 | 12425 | 7933 | 157 | 5 | 3.1847 | |
| ckim-gatk | INDEL | I6_15 | * | hetalt | 95.9700 | 92.3167 | 99.9244 | 35.7056 | 7894 | 657 | 7935 | 6 | 5 | 83.3333 | |
| astatham-gatk | SNP | tv | map_l125_m2_e0 | het | 86.2155 | 76.0103 | 99.5858 | 81.0010 | 7937 | 2505 | 7935 | 33 | 8 | 24.2424 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 62.8790 | 57.8527 | 68.8617 | 41.8554 | 7975 | 5810 | 7937 | 3589 | 3504 | 97.6317 | |
| cchapple-custom | SNP | ti | map_l125_m0_e0 | het | 95.6528 | 96.1152 | 95.1947 | 80.1979 | 7942 | 321 | 7944 | 401 | 119 | 29.6758 | |
| qzeng-custom | SNP | * | map_l150_m2_e1 | homalt | 80.8266 | 68.2422 | 99.1019 | 73.2731 | 8071 | 3756 | 7945 | 72 | 72 | 100.0000 | |
| ckim-vqsr | SNP | ti | map_l150_m1_e0 | het | 77.8168 | 64.2603 | 98.6225 | 90.8714 | 7949 | 4421 | 7947 | 111 | 1 | 0.9009 | |
| ckim-isaac | SNP | ti | map_l150_m2_e1 | het | 75.7313 | 61.0680 | 99.6614 | 80.0450 | 7948 | 5067 | 7948 | 27 | 3 | 11.1111 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.9159 | 94.4855 | 99.4747 | 56.3830 | 7933 | 463 | 7953 | 42 | 13 | 30.9524 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 75.6523 | 61.3266 | 98.7108 | 36.0827 | 8441 | 5323 | 7963 | 104 | 95 | 91.3462 | |
| ltrigg-rtg1 | SNP | ti | map_l125_m0_e0 | het | 98.0426 | 96.3815 | 99.7620 | 61.0832 | 7964 | 299 | 7964 | 19 | 3 | 15.7895 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.9509 | 94.7199 | 99.2895 | 61.7800 | 7965 | 444 | 7965 | 57 | 48 | 84.2105 | |
| anovak-vg | SNP | * | HG002compoundhet | homalt | 80.7165 | 80.5695 | 80.8640 | 38.2684 | 8687 | 2095 | 7974 | 1887 | 1143 | 60.5723 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 47.3208 | 43.7811 | 51.4831 | 46.1266 | 7994 | 10265 | 7984 | 7524 | 7396 | 98.2988 | |
| hfeng-pmm1 | INDEL | I6_15 | HG002compoundhet | hetalt | 96.4145 | 93.0772 | 100.0000 | 29.8859 | 7946 | 591 | 7986 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I1_5 | HG002compoundhet | hetalt | 83.2751 | 71.4771 | 99.7378 | 70.8280 | 7989 | 3188 | 7987 | 21 | 17 | 80.9524 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.2193 | 95.0054 | 99.5389 | 60.9375 | 7989 | 420 | 7988 | 37 | 23 | 62.1622 | |
| hfeng-pmm3 | INDEL | I6_15 | HG002compoundhet | hetalt | 96.4396 | 93.1240 | 100.0000 | 29.8754 | 7950 | 587 | 7990 | 0 | 0 | ||
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.6132 | 95.1837 | 98.0864 | 57.9273 | 8004 | 405 | 7996 | 156 | 101 | 64.7436 | |
| astatham-gatk | INDEL | I6_15 | HG002compoundhet | hetalt | 96.4594 | 93.1826 | 99.9750 | 29.7620 | 7955 | 582 | 7996 | 2 | 2 | 100.0000 | |
| gduggal-bwaplat | INDEL | I1_5 | * | hetalt | 82.6726 | 71.4515 | 98.0748 | 76.8337 | 7999 | 3196 | 7998 | 157 | 152 | 96.8153 | |
| hfeng-pmm1 | INDEL | I6_15 | * | hetalt | 96.4031 | 93.0885 | 99.9625 | 39.0201 | 7960 | 591 | 8000 | 3 | 3 | 100.0000 | |