PrecisionFDA
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
30001-30050 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.6789 | 94.2328 | 99.2552 | 26.5783 | 4379 | 268 | 4398 | 33 | 30 | 90.9091 | |
| ckim-isaac | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 96.7794 | 94.2322 | 99.4681 | 58.4858 | 1307 | 80 | 1309 | 7 | 1 | 14.2857 | |
| ckim-isaac | INDEL | D1_5 | segdup | hetalt | 96.1154 | 94.2308 | 98.0769 | 93.2026 | 49 | 3 | 51 | 1 | 1 | 100.0000 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 96.0973 | 94.2308 | 98.0392 | 54.0541 | 49 | 3 | 50 | 1 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 97.0297 | 94.2308 | 100.0000 | 57.9832 | 49 | 3 | 50 | 0 | 0 | ||
| jlack-gatk | INDEL | D1_5 | segdup | hetalt | 97.0297 | 94.2308 | 100.0000 | 95.7018 | 49 | 3 | 49 | 0 | 0 | ||
| ltrigg-rtg1 | INDEL | I6_15 | HG002compoundhet | het | 94.6384 | 94.2308 | 95.0495 | 73.6292 | 196 | 12 | 192 | 10 | 6 | 60.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 97.0297 | 94.2308 | 100.0000 | 59.6774 | 49 | 3 | 50 | 0 | 0 | ||
| gduggal-bwafb | INDEL | D1_5 | segdup | hetalt | 94.1742 | 94.2308 | 94.1176 | 97.6902 | 49 | 3 | 16 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 96.1492 | 94.2273 | 98.1512 | 80.5335 | 3689 | 226 | 3610 | 68 | 32 | 47.0588 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.9869 | 94.2259 | 99.9146 | 34.2135 | 1126 | 69 | 1170 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.7064 | 94.2259 | 99.3209 | 30.4194 | 1126 | 69 | 1170 | 8 | 7 | 87.5000 | |
| eyeh-varpipe | INDEL | I1_5 | HG002compoundhet | homalt | 14.0848 | 94.2249 | 7.6112 | 66.1111 | 310 | 19 | 260 | 3156 | 3150 | 99.8099 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.8156 | 94.2210 | 99.5572 | 26.7488 | 6701 | 411 | 6745 | 30 | 30 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.2631 | 94.2205 | 98.3962 | 48.3858 | 1239 | 76 | 1227 | 20 | 11 | 55.0000 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 95.0318 | 94.2197 | 95.8580 | 61.6780 | 326 | 20 | 324 | 14 | 10 | 71.4286 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 69.6060 | 94.2197 | 55.1887 | 74.6108 | 326 | 20 | 351 | 285 | 24 | 8.4211 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 66.1849 | 94.2197 | 51.0078 | 73.0013 | 326 | 20 | 329 | 316 | 307 | 97.1519 | |
| raldana-dualsentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.2210 | 94.2188 | 96.2448 | 59.6025 | 2575 | 158 | 2563 | 100 | 97 | 97.0000 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 93.2033 | 94.2180 | 92.2102 | 45.7942 | 2982 | 183 | 2983 | 252 | 219 | 86.9048 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.3822 | 94.2153 | 98.6511 | 52.7880 | 3290 | 202 | 3291 | 45 | 38 | 84.4444 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.5660 | 94.2153 | 99.0370 | 52.3174 | 3290 | 202 | 3291 | 32 | 26 | 81.2500 | |
| ckim-vqsr | INDEL | D1_5 | map_l250_m2_e0 | het | 90.1186 | 94.2149 | 86.3636 | 97.4995 | 114 | 7 | 114 | 18 | 1 | 5.5556 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.4941 | 94.2149 | 96.8085 | 80.8641 | 912 | 56 | 819 | 27 | 18 | 66.6667 | |
| hfeng-pmm1 | INDEL | D1_5 | map_l250_m2_e0 | het | 96.6102 | 94.2149 | 99.1304 | 93.9633 | 114 | 7 | 114 | 1 | 0 | 0.0000 | |
| gduggal-snapfb | SNP | * | map_l250_m1_e0 | * | 94.5000 | 94.2121 | 94.7896 | 89.4714 | 6804 | 418 | 6804 | 374 | 175 | 46.7914 | |
| gduggal-bwaplat | SNP | ti | HG002compoundhet | homalt | 96.4038 | 94.2115 | 98.7006 | 34.6979 | 6966 | 428 | 6912 | 91 | 82 | 90.1099 | |
| rpoplin-dv42 | INDEL | * | map_l250_m1_e0 | het | 95.4667 | 94.2105 | 96.7568 | 95.6957 | 179 | 11 | 179 | 6 | 3 | 50.0000 | |
| raldana-dualsentieon | INDEL | * | map_l250_m1_e0 | het | 93.2292 | 94.2105 | 92.2680 | 95.0218 | 179 | 11 | 179 | 15 | 1 | 6.6667 | |
| ckim-dragen | INDEL | * | map_l250_m1_e0 | het | 92.0043 | 94.2105 | 89.8990 | 96.4744 | 179 | 11 | 178 | 20 | 2 | 10.0000 | |
| gduggal-snapvard | INDEL | * | map_l250_m1_e0 | het | 72.3286 | 94.2105 | 58.6957 | 95.8488 | 179 | 11 | 270 | 190 | 42 | 22.1053 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 81.7737 | 94.2085 | 72.2388 | 51.3788 | 244 | 15 | 242 | 93 | 93 | 100.0000 | |
| ndellapenna-hhga | INDEL | D16_PLUS | * | homalt | 92.1150 | 94.2080 | 90.1130 | 60.6404 | 1594 | 98 | 1595 | 175 | 104 | 59.4286 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.8082 | 94.2070 | 99.5571 | 26.7517 | 6700 | 412 | 6744 | 30 | 30 | 100.0000 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 94.2063 | 0.0000 | 0.0000 | 7626 | 469 | 0 | 0 | 0 | ||
| ckim-gatk | INDEL | D16_PLUS | * | hetalt | 96.6957 | 94.2059 | 99.3207 | 38.1824 | 1821 | 112 | 2047 | 14 | 14 | 100.0000 | |
| ckim-vqsr | INDEL | D16_PLUS | * | hetalt | 96.6957 | 94.2059 | 99.3207 | 38.1824 | 1821 | 112 | 2047 | 14 | 14 | 100.0000 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.7688 | 94.2040 | 99.4772 | 35.3452 | 1219 | 75 | 1332 | 7 | 7 | 100.0000 | |
| eyeh-varpipe | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 73.3083 | 94.2029 | 60.0000 | 83.8710 | 65 | 4 | 57 | 38 | 9 | 23.6842 | |
| gduggal-bwafb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 86.1668 | 94.2029 | 79.3939 | 87.5000 | 1040 | 64 | 1048 | 272 | 43 | 15.8088 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 94.9526 | 94.2029 | 95.7143 | 65.8537 | 65 | 4 | 67 | 3 | 3 | 100.0000 | |
| cchapple-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 97.0149 | 94.2029 | 100.0000 | 83.5476 | 65 | 4 | 64 | 0 | 0 | ||
| qzeng-custom | SNP | ti | HG002complexvar | hetalt | 97.0149 | 94.2029 | 100.0000 | 39.1447 | 195 | 12 | 185 | 0 | 0 | ||
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 76.2734 | 94.2029 | 64.0777 | 91.7797 | 65 | 4 | 66 | 37 | 26 | 70.2703 | |
| anovak-vg | INDEL | * | HG002complexvar | homalt | 75.7278 | 94.2021 | 63.3115 | 49.8629 | 25460 | 1567 | 25940 | 15032 | 14199 | 94.4585 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 96.9804 | 94.2019 | 99.9277 | 38.3793 | 1381 | 85 | 1383 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.8070 | 94.2013 | 99.5609 | 27.3655 | 6758 | 416 | 6802 | 30 | 30 | 100.0000 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 95.3539 | 94.1988 | 96.5376 | 67.5442 | 4709 | 290 | 4963 | 178 | 155 | 87.0787 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 95.3539 | 94.1988 | 96.5376 | 67.5442 | 4709 | 290 | 4963 | 178 | 155 | 87.0787 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 0.0000 | 94.1987 | 0.0000 | 0.0000 | 8752 | 539 | 0 | 0 | 0 | ||