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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
46601-46650 / 86044 show all | |||||||||||||||
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 57.8169 | 95.5224 | 41.4538 | 69.3558 | 192 | 9 | 211 | 298 | 13 | 4.3624 | |
| astatham-gatk | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 98.6948 | 97.7785 | 99.6284 | 69.3550 | 2949 | 67 | 2949 | 11 | 6 | 54.5455 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 62.5501 | 70.8661 | 55.9809 | 69.3548 | 90 | 37 | 117 | 92 | 52 | 56.5217 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 96.8333 | 94.9153 | 98.8304 | 69.3548 | 168 | 9 | 169 | 2 | 2 | 100.0000 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 96.1180 | 95.8000 | 96.4382 | 69.3543 | 2874 | 126 | 2870 | 106 | 91 | 85.8491 | |
| eyeh-varpipe | SNP | tv | map_l100_m1_e0 | hetalt | 99.3548 | 100.0000 | 98.7179 | 69.3517 | 41 | 0 | 154 | 2 | 1 | 50.0000 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 25.0146 | 16.3556 | 53.1570 | 69.3516 | 1034 | 5288 | 985 | 868 | 794 | 91.4747 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 25.0146 | 16.3556 | 53.1570 | 69.3516 | 1034 | 5288 | 985 | 868 | 794 | 91.4747 | |
| dgrover-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 97.4823 | 96.9868 | 97.9829 | 69.3497 | 2575 | 80 | 2526 | 52 | 40 | 76.9231 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 93.3176 | 88.2784 | 98.9669 | 69.3477 | 482 | 64 | 479 | 5 | 1 | 20.0000 | |
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.0362 | 99.2900 | 96.8136 | 69.3472 | 1818 | 13 | 1823 | 60 | 2 | 3.3333 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 90.7398 | 88.1890 | 93.4426 | 69.3467 | 112 | 15 | 114 | 8 | 7 | 87.5000 | |
| raldana-dualsentieon | INDEL | D6_15 | HG002compoundhet | het | 78.4773 | 78.8551 | 78.1030 | 69.3467 | 675 | 181 | 667 | 187 | 185 | 98.9305 | |
| jpowers-varprowl | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 65.5149 | 76.6385 | 57.2111 | 69.3456 | 1181 | 360 | 1198 | 896 | 886 | 98.8839 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 73.8753 | 73.0416 | 74.7283 | 69.3443 | 3739 | 1380 | 3850 | 1302 | 863 | 66.2826 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8092 | 99.6190 | 100.0000 | 69.3435 | 523 | 2 | 523 | 0 | 0 | ||
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 86.6576 | 80.0000 | 94.5238 | 69.3431 | 392 | 98 | 397 | 23 | 21 | 91.3043 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 94.1964 | 100.0000 | 89.0295 | 69.3402 | 211 | 0 | 211 | 26 | 25 | 96.1538 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 94.1964 | 100.0000 | 89.0295 | 69.3402 | 211 | 0 | 211 | 26 | 25 | 96.1538 | |
| ltrigg-rtg1 | SNP | tv | map_l150_m0_e0 | * | 97.9546 | 96.3824 | 99.5789 | 69.3400 | 4023 | 151 | 4020 | 17 | 4 | 23.5294 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 95.4545 | 91.3043 | 100.0000 | 69.3396 | 63 | 6 | 65 | 0 | 0 | ||
| jlack-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 98.9076 | 98.5488 | 99.2691 | 69.3358 | 1494 | 22 | 1494 | 11 | 2 | 18.1818 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 42.0732 | 33.1541 | 57.5573 | 69.3357 | 2096 | 4226 | 2083 | 1536 | 1445 | 94.0755 | |
| gduggal-bwavard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 42.0732 | 33.1541 | 57.5573 | 69.3357 | 2096 | 4226 | 2083 | 1536 | 1445 | 94.0755 | |
| gduggal-bwavard | INDEL | D16_PLUS | * | * | 63.4968 | 61.3502 | 65.7990 | 69.3353 | 4162 | 2622 | 4171 | 2168 | 1906 | 87.9151 | |
| ckim-dragen | SNP | tv | map_l100_m1_e0 | * | 98.6576 | 99.2817 | 98.0414 | 69.3325 | 24325 | 176 | 24328 | 486 | 45 | 9.2593 | |
| dgrover-gatk | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.6764 | 99.7409 | 99.6119 | 69.3315 | 3080 | 8 | 3080 | 12 | 9 | 75.0000 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.5095 | 99.8906 | 99.1314 | 69.3307 | 913 | 1 | 913 | 8 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | * | HG002complexvar | hetalt | 95.4215 | 93.3225 | 97.6172 | 69.3301 | 3452 | 247 | 3687 | 90 | 84 | 93.3333 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.7283 | 98.2659 | 95.2381 | 69.3299 | 340 | 6 | 340 | 17 | 13 | 76.4706 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.9562 | 97.9339 | 100.0000 | 69.3299 | 237 | 5 | 238 | 0 | 0 | ||
| hfeng-pmm3 | SNP | ti | map_l125_m1_e0 | * | 99.5837 | 99.4989 | 99.6687 | 69.3283 | 29188 | 147 | 29184 | 97 | 16 | 16.4948 | |
| asubramanian-gatk | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 0.0000 | 0.0000 | 69.3277 | 0 | 0 | 0 | 73 | 0 | 0.0000 | ||
| dgrover-gatk | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.3391 | 99.1425 | 99.5364 | 69.3276 | 1503 | 13 | 1503 | 7 | 2 | 28.5714 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.5017 | 97.6560 | 99.3622 | 69.3191 | 28039 | 673 | 28040 | 180 | 4 | 2.2222 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.5017 | 97.6560 | 99.3622 | 69.3191 | 28039 | 673 | 28040 | 180 | 4 | 2.2222 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.9427 | 98.5704 | 99.3179 | 69.3175 | 2620 | 38 | 2621 | 18 | 14 | 77.7778 | |
| jmaeng-gatk | SNP | ti | map_siren | het | 96.0962 | 93.8396 | 98.4641 | 69.3151 | 58539 | 3843 | 58530 | 913 | 76 | 8.3242 | |
| hfeng-pmm1 | SNP | tv | map_l125_m1_e0 | * | 99.4714 | 99.2945 | 99.6491 | 69.3117 | 15903 | 113 | 15901 | 56 | 16 | 28.5714 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | het | 61.8785 | 91.8033 | 46.6667 | 69.3095 | 56 | 5 | 56 | 64 | 60 | 93.7500 | |
| dgrover-gatk | SNP | tv | map_l150_m1_e0 | homalt | 99.4146 | 98.9863 | 99.8466 | 69.3080 | 3906 | 40 | 3906 | 6 | 4 | 66.6667 | |
| hfeng-pmm1 | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.6608 | 99.4733 | 99.8491 | 69.3074 | 2644 | 14 | 2646 | 4 | 2 | 50.0000 | |
| asubramanian-gatk | INDEL | C1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 0.0000 | 0.0000 | 69.3069 | 0 | 0 | 0 | 31 | 0 | 0.0000 | ||
| ckim-dragen | SNP | ti | lowcmp_SimpleRepeat_diTR_11to50 | * | 99.7111 | 99.6899 | 99.7323 | 69.3066 | 4822 | 15 | 4843 | 13 | 10 | 76.9231 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 86.6522 | 77.1817 | 98.7718 | 69.3057 | 964 | 285 | 965 | 12 | 10 | 83.3333 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 86.6522 | 77.1817 | 98.7718 | 69.3057 | 964 | 285 | 965 | 12 | 10 | 83.3333 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 43.8042 | 29.8151 | 82.5243 | 69.3041 | 1709 | 4023 | 1700 | 360 | 316 | 87.7778 | |
| ndellapenna-hhga | SNP | tv | map_l125_m2_e0 | * | 99.1430 | 98.5687 | 99.7239 | 69.3029 | 16253 | 236 | 16253 | 45 | 22 | 48.8889 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 63.0461 | 57.4841 | 69.7998 | 69.3027 | 722 | 534 | 802 | 347 | 171 | 49.2795 | |
| ghariani-varprowl | INDEL | D1_5 | HG002compoundhet | homalt | 41.9971 | 92.4399 | 27.1706 | 69.3007 | 269 | 22 | 266 | 713 | 597 | 83.7307 | |