PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
28351-28400 / 86044 show all | |||||||||||||||
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.3329 | 98.3607 | 98.3051 | 75.0000 | 60 | 1 | 58 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l125_m2_e1 | het | 97.9827 | 97.6623 | 98.3051 | 85.1328 | 752 | 18 | 754 | 13 | 2 | 15.3846 | |
| ckim-dragen | INDEL | D1_5 | map_l250_m2_e0 | homalt | 97.4790 | 96.6667 | 98.3051 | 94.5065 | 58 | 2 | 58 | 1 | 1 | 100.0000 | |
| ckim-dragen | INDEL | D1_5 | map_l250_m2_e1 | homalt | 97.4790 | 96.6667 | 98.3051 | 94.6266 | 58 | 2 | 58 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | SNP | tv | map_l125_m2_e0 | het | 98.8667 | 99.4350 | 98.3049 | 76.2296 | 10383 | 59 | 10381 | 179 | 22 | 12.2905 | |
| raldana-dualsentieon | SNP | tv | map_l150_m0_e0 | het | 98.1142 | 97.9247 | 98.3045 | 80.9258 | 2784 | 59 | 2783 | 48 | 1 | 2.0833 | |
| gduggal-snapfb | INDEL | * | map_l100_m2_e1 | homalt | 96.5853 | 94.9258 | 98.3037 | 87.2974 | 1216 | 65 | 1217 | 21 | 13 | 61.9048 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0563 | 99.8206 | 98.3037 | 63.5993 | 8345 | 15 | 8345 | 144 | 142 | 98.6111 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0563 | 99.8206 | 98.3037 | 63.5993 | 8345 | 15 | 8345 | 144 | 142 | 98.6111 | |
| dgrover-gatk | INDEL | * | map_l100_m1_e0 | * | 98.3431 | 98.3826 | 98.3037 | 85.8553 | 3528 | 58 | 3535 | 61 | 16 | 26.2295 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 90.8745 | 84.4894 | 98.3036 | 44.9837 | 6809 | 1250 | 1159 | 20 | 20 | 100.0000 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 90.8745 | 84.4894 | 98.3036 | 44.9837 | 6809 | 1250 | 1159 | 20 | 20 | 100.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | * | * | 82.9287 | 71.7129 | 98.3034 | 72.8727 | 4865 | 1919 | 4867 | 84 | 65 | 77.3810 | |
| eyeh-varpipe | SNP | ti | map_l125_m2_e1 | het | 98.9249 | 99.5547 | 98.3030 | 76.7768 | 19002 | 85 | 18595 | 321 | 15 | 4.6729 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l100_m0_e0 | het | 98.0506 | 97.8003 | 98.3022 | 82.9226 | 578 | 13 | 579 | 10 | 1 | 10.0000 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.7434 | 99.1886 | 98.3021 | 75.3952 | 5379 | 44 | 5095 | 88 | 22 | 25.0000 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.7434 | 99.1886 | 98.3021 | 75.3952 | 5379 | 44 | 5095 | 88 | 22 | 25.0000 | |
| hfeng-pmm1 | INDEL | * | map_l100_m0_e0 | het | 97.2294 | 96.1802 | 98.3017 | 84.1086 | 982 | 39 | 984 | 17 | 2 | 11.7647 | |
| anovak-vg | SNP | tv | * | * | 98.3366 | 98.3717 | 98.3016 | 24.5602 | 953908 | 15790 | 951566 | 16441 | 6526 | 39.6934 | |
| eyeh-varpipe | SNP | ti | map_l125_m2_e0 | het | 98.9240 | 99.5550 | 98.3009 | 76.7289 | 18792 | 84 | 18398 | 318 | 15 | 4.7170 | |
| rpoplin-dv42 | INDEL | D1_5 | map_l150_m2_e0 | * | 98.2984 | 98.2962 | 98.3007 | 88.8468 | 750 | 13 | 752 | 13 | 6 | 46.1538 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 97.8522 | 97.4079 | 98.3005 | 42.9181 | 1428 | 38 | 1446 | 25 | 22 | 88.0000 | |
| ckim-isaac | INDEL | D1_5 | map_l150_m2_e0 | het | 79.9092 | 67.3152 | 98.3003 | 91.4899 | 346 | 168 | 347 | 6 | 2 | 33.3333 | |
| jlack-gatk | SNP | ti | * | hetalt | 98.8034 | 99.3127 | 98.2993 | 52.8846 | 578 | 4 | 578 | 10 | 10 | 100.0000 | |
| jpowers-varprowl | INDEL | D1_5 | * | homalt | 93.6510 | 89.4228 | 98.2990 | 49.9719 | 43751 | 5175 | 43688 | 756 | 634 | 83.8624 | |
| dgrover-gatk | INDEL | * | map_l100_m2_e0 | * | 98.3370 | 98.3753 | 98.2987 | 86.6371 | 3633 | 60 | 3640 | 63 | 16 | 25.3968 | |
| ghariani-varprowl | SNP | tv | segdup | homalt | 99.0657 | 99.8456 | 98.2979 | 91.0501 | 3233 | 5 | 3234 | 56 | 29 | 51.7857 | |
| jpowers-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 98.4208 | 98.5443 | 98.2976 | 60.8492 | 1557 | 23 | 1559 | 27 | 0 | 0.0000 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 89.3587 | 81.9106 | 98.2968 | 40.7781 | 403 | 89 | 404 | 7 | 6 | 85.7143 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.3350 | 98.3733 | 98.2966 | 76.2904 | 2419 | 40 | 2366 | 41 | 27 | 65.8537 | |
| gduggal-bwaplat | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 94.2517 | 90.5267 | 98.2964 | 70.3273 | 2303 | 241 | 2308 | 40 | 7 | 17.5000 | |
| hfeng-pmm2 | INDEL | I1_5 | map_l150_m0_e0 | * | 98.0105 | 97.7273 | 98.2955 | 92.1499 | 172 | 4 | 173 | 3 | 2 | 66.6667 | |
| hfeng-pmm3 | INDEL | I1_5 | map_l150_m0_e0 | * | 98.0105 | 97.7273 | 98.2955 | 90.9558 | 172 | 4 | 173 | 3 | 2 | 66.6667 | |
| mlin-fermikit | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.8267 | 99.3639 | 98.2952 | 44.3446 | 2187 | 14 | 2191 | 38 | 38 | 100.0000 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 69.5282 | 53.7870 | 98.2949 | 51.2231 | 980 | 842 | 980 | 17 | 16 | 94.1176 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 91.6583 | 85.8616 | 98.2945 | 30.7003 | 8994 | 1481 | 9279 | 161 | 143 | 88.8199 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 89.1696 | 81.5951 | 98.2942 | 69.4959 | 931 | 210 | 922 | 16 | 16 | 100.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.0333 | 99.7835 | 98.2942 | 63.8675 | 461 | 1 | 461 | 8 | 8 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.3791 | 96.4809 | 98.2942 | 54.2906 | 21467 | 783 | 21493 | 373 | 326 | 87.3995 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 52.8467 | 36.1380 | 98.2938 | 38.9792 | 1456 | 2573 | 2362 | 41 | 37 | 90.2439 | |
| jpowers-varprowl | INDEL | I1_5 | map_siren | homalt | 96.6009 | 94.9670 | 98.2921 | 70.2641 | 1151 | 61 | 1151 | 20 | 15 | 75.0000 | |
| raldana-dualsentieon | INDEL | D1_5 | map_l125_m2_e0 | het | 97.9668 | 97.6440 | 98.2917 | 85.0197 | 746 | 18 | 748 | 13 | 2 | 15.3846 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.4000 | 96.5248 | 98.2912 | 75.1339 | 1361 | 49 | 1323 | 23 | 18 | 78.2609 | |
| hfeng-pmm1 | INDEL | D16_PLUS | * | * | 97.5778 | 96.8750 | 98.2909 | 66.6166 | 6572 | 212 | 6556 | 114 | 68 | 59.6491 | |
| qzeng-custom | INDEL | D1_5 | map_l125_m2_e1 | homalt | 86.7834 | 77.6882 | 98.2906 | 84.8576 | 289 | 83 | 345 | 6 | 6 | 100.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 92.7523 | 87.8049 | 98.2906 | 88.1579 | 216 | 30 | 230 | 4 | 3 | 75.0000 | |
| asubramanian-gatk | INDEL | * | map_l100_m1_e0 | hetalt | 94.5744 | 91.1290 | 98.2906 | 87.2964 | 113 | 11 | 115 | 2 | 1 | 50.0000 | |
| ltrigg-rtg1 | INDEL | * | map_l250_m2_e0 | homalt | 99.1379 | 100.0000 | 98.2906 | 94.5808 | 115 | 0 | 115 | 2 | 1 | 50.0000 | |
| qzeng-custom | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.8309 | 99.3772 | 98.2905 | 53.9062 | 6702 | 42 | 6727 | 117 | 6 | 5.1282 | |
| mlin-fermikit | SNP | ti | map_l125_m2_e0 | het | 62.0977 | 45.3857 | 98.2903 | 64.2784 | 8567 | 10309 | 8566 | 149 | 7 | 4.6980 | |