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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
17701-17750 / 86044 show all | |||||||||||||||
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.3468 | 95.0887 | 99.7147 | 63.4324 | 697 | 36 | 699 | 2 | 2 | 100.0000 | |
| ltrigg-rtg1 | SNP | tv | HG002compoundhet | * | 98.9891 | 98.2741 | 99.7146 | 44.8855 | 8769 | 154 | 8736 | 25 | 5 | 20.0000 | |
| ltrigg-rtg1 | SNP | * | map_l100_m0_e0 | het | 98.4261 | 97.1705 | 99.7145 | 55.4883 | 20605 | 600 | 20610 | 59 | 8 | 13.5593 | |
| astatham-gatk | INDEL | D1_5 | * | het | 99.6974 | 99.6803 | 99.7145 | 58.9760 | 87294 | 280 | 87301 | 250 | 122 | 48.8000 | |
| ckim-isaac | SNP | ti | map_l100_m0_e0 | het | 78.6364 | 64.9145 | 99.7144 | 71.0617 | 9077 | 4906 | 9078 | 26 | 3 | 11.5385 | |
| ckim-isaac | INDEL | D1_5 | segdup | homalt | 98.4485 | 97.2145 | 99.7143 | 91.3644 | 349 | 10 | 349 | 1 | 0 | 0.0000 | |
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.0047 | 98.3051 | 99.7143 | 69.9828 | 348 | 6 | 349 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6666 | 99.6190 | 99.7143 | 62.5668 | 1046 | 4 | 1047 | 3 | 3 | 100.0000 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.4756 | 99.2381 | 99.7143 | 61.1399 | 1042 | 8 | 1047 | 3 | 3 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.0047 | 98.3051 | 99.7143 | 69.9828 | 348 | 6 | 349 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.0047 | 98.3051 | 99.7143 | 68.8335 | 348 | 6 | 349 | 1 | 1 | 100.0000 | |
| ndellapenna-hhga | SNP | ti | map_l150_m0_e0 | * | 98.6696 | 97.6466 | 99.7142 | 77.5024 | 7676 | 185 | 7676 | 22 | 11 | 50.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.6188 | 99.5238 | 99.7140 | 62.1846 | 1045 | 5 | 1046 | 3 | 3 | 100.0000 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.8999 | 98.0990 | 99.7140 | 75.1504 | 14294 | 277 | 14294 | 41 | 13 | 31.7073 | |
| astatham-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.8999 | 98.0990 | 99.7140 | 75.1504 | 14294 | 277 | 14294 | 41 | 13 | 31.7073 | |
| rpoplin-dv42 | SNP | * | map_l150_m1_e0 | homalt | 99.3277 | 98.9444 | 99.7139 | 71.2907 | 11154 | 119 | 11154 | 32 | 31 | 96.8750 | |
| raldana-dualsentieon | SNP | * | func_cds | het | 99.8299 | 99.9462 | 99.7139 | 24.9799 | 11155 | 6 | 11152 | 32 | 0 | 0.0000 | |
| ltrigg-rtg1 | SNP | tv | map_l250_m0_e0 | * | 95.2899 | 91.2418 | 99.7139 | 86.9370 | 698 | 67 | 697 | 2 | 0 | 0.0000 | |
| jmaeng-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.7157 | 99.7174 | 99.7139 | 56.2929 | 27880 | 79 | 27879 | 80 | 10 | 12.5000 | |
| jmaeng-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 99.5562 | 99.3991 | 99.7137 | 77.6038 | 6617 | 40 | 6617 | 19 | 5 | 26.3158 | |
| ltrigg-rtg1 | SNP | ti | map_l250_m2_e0 | homalt | 99.6280 | 99.5426 | 99.7136 | 87.3322 | 1741 | 8 | 1741 | 5 | 5 | 100.0000 | |
| ltrigg-rtg1 | SNP | ti | map_l250_m2_e1 | * | 97.8015 | 95.9614 | 99.7136 | 84.0906 | 4871 | 205 | 4874 | 14 | 8 | 57.1429 | |
| gduggal-bwafb | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.1176 | 98.5286 | 99.7136 | 61.8611 | 1741 | 26 | 1741 | 5 | 5 | 100.0000 | |
| ltrigg-rtg1 | SNP | * | map_l250_m2_e0 | het | 96.6769 | 93.8198 | 99.7135 | 80.2936 | 4873 | 321 | 4873 | 14 | 4 | 28.5714 | |
| ltrigg-rtg1 | SNP | * | map_l250_m2_e1 | * | 97.7139 | 95.7932 | 99.7133 | 83.6180 | 7651 | 336 | 7651 | 22 | 11 | 50.0000 | |
| ltrigg-rtg1 | SNP | tv | map_l250_m2_e1 | * | 97.5651 | 95.5075 | 99.7133 | 82.6147 | 2785 | 131 | 2782 | 8 | 3 | 37.5000 | |
| ltrigg-rtg1 | INDEL | I1_5 | * | het | 99.3128 | 98.9158 | 99.7130 | 54.8506 | 78184 | 857 | 77471 | 223 | 56 | 25.1121 | |
| rpoplin-dv42 | INDEL | * | HG002compoundhet | hetalt | 95.8717 | 92.3153 | 99.7130 | 50.6553 | 23245 | 1935 | 23276 | 67 | 66 | 98.5075 | |
| ltrigg-rtg2 | SNP | tv | map_siren | * | 99.4071 | 99.1030 | 99.7130 | 49.8109 | 45518 | 412 | 45517 | 131 | 9 | 6.8702 | |
| dgrover-gatk | SNP | ti | map_siren | * | 99.6765 | 99.6403 | 99.7128 | 55.1320 | 99994 | 361 | 99979 | 288 | 68 | 23.6111 | |
| ckim-dragen | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.7361 | 99.7595 | 99.7127 | 70.2512 | 6221 | 15 | 6248 | 18 | 14 | 77.7778 | |
| mlin-fermikit | INDEL | D1_5 | * | hetalt | 80.4314 | 67.3987 | 99.7126 | 64.5076 | 6905 | 3340 | 6939 | 20 | 20 | 100.0000 | |
| hfeng-pmm3 | INDEL | D1_5 | map_l125_m1_e0 | homalt | 99.5696 | 99.4269 | 99.7126 | 82.3350 | 347 | 2 | 347 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.7165 | 97.7401 | 99.7126 | 68.9286 | 346 | 8 | 347 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | * | * | hetalt | 95.2835 | 91.2311 | 99.7126 | 56.1602 | 23024 | 2213 | 23247 | 67 | 66 | 98.5075 | |
| ckim-dragen | INDEL | * | * | hetalt | 95.9597 | 92.4793 | 99.7124 | 57.0557 | 23339 | 1898 | 23575 | 68 | 68 | 100.0000 | |
| ndellapenna-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5689 | 99.4260 | 99.7122 | 48.3103 | 2425 | 14 | 2425 | 7 | 3 | 42.8571 | |
| gduggal-bwaplat | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 96.7303 | 93.9215 | 99.7122 | 49.8216 | 5887 | 381 | 5890 | 17 | 4 | 23.5294 | |
| egarrison-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.5483 | 99.3850 | 99.7121 | 48.3425 | 2424 | 15 | 2424 | 7 | 3 | 42.8571 | |
| ckim-dragen | SNP | ti | * | * | 99.8327 | 99.9538 | 99.7120 | 20.2602 | 2084547 | 964 | 2084816 | 6022 | 378 | 6.2770 | |
| hfeng-pmm3 | INDEL | * | * | * | 99.3628 | 99.0161 | 99.7120 | 56.9384 | 341152 | 3390 | 341013 | 985 | 798 | 81.0152 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8557 | 100.0000 | 99.7118 | 78.4739 | 346 | 0 | 346 | 1 | 1 | 100.0000 | |
| hfeng-pmm3 | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.2346 | 98.7619 | 99.7118 | 60.6427 | 1037 | 13 | 1038 | 3 | 3 | 100.0000 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8557 | 100.0000 | 99.7118 | 79.0206 | 346 | 0 | 346 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8557 | 100.0000 | 99.7118 | 79.2588 | 346 | 0 | 346 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8557 | 100.0000 | 99.7118 | 79.2216 | 346 | 0 | 346 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8557 | 100.0000 | 99.7118 | 79.2216 | 346 | 0 | 346 | 1 | 1 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.5718 | 97.4576 | 99.7118 | 70.3672 | 345 | 9 | 346 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l125_m1_e0 | homalt | 99.4253 | 99.1404 | 99.7118 | 83.2690 | 346 | 3 | 346 | 1 | 1 | 100.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8557 | 100.0000 | 99.7118 | 78.8544 | 346 | 0 | 346 | 1 | 1 | 100.0000 | |