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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
29651-29700 / 86044 show all | |||||||||||||||
| qzeng-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 93.7151 | 96.2963 | 91.2688 | 89.1952 | 1248 | 48 | 1338 | 128 | 35 | 27.3438 | |
| astatham-gatk | SNP | * | map_siren | * | 93.7139 | 88.2540 | 99.8939 | 58.6796 | 129052 | 17176 | 129029 | 137 | 67 | 48.9051 | |
| jmaeng-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 93.7133 | 90.3226 | 97.3684 | 99.9248 | 112 | 12 | 111 | 3 | 0 | 0.0000 | |
| eyeh-varpipe | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 93.7133 | 98.5372 | 89.3396 | 84.5796 | 10643 | 158 | 9822 | 1172 | 111 | 9.4710 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 93.7110 | 91.4414 | 96.0961 | 45.1400 | 203 | 19 | 320 | 13 | 11 | 84.6154 | |
| jlack-gatk | INDEL | * | map_l150_m2_e0 | * | 93.7096 | 98.1534 | 89.6507 | 92.6142 | 1382 | 26 | 1386 | 160 | 9 | 5.6250 | |
| cchapple-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 93.7077 | 92.3701 | 95.0845 | 58.6667 | 569 | 47 | 619 | 32 | 28 | 87.5000 | |
| mlin-fermikit | SNP | tv | tech_badpromoters | * | 93.7063 | 93.0556 | 94.3662 | 43.6508 | 67 | 5 | 67 | 4 | 2 | 50.0000 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 93.7050 | 91.2434 | 96.3031 | 57.7013 | 521 | 50 | 521 | 20 | 16 | 80.0000 | |
| mlin-fermikit | SNP | ti | HG002compoundhet | * | 93.7043 | 92.8195 | 94.6061 | 36.5228 | 16223 | 1255 | 16224 | 925 | 739 | 79.8919 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | het | 93.7037 | 95.8333 | 91.6667 | 76.2376 | 23 | 1 | 22 | 2 | 1 | 50.0000 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | het | 93.7037 | 95.8333 | 91.6667 | 76.6990 | 23 | 1 | 22 | 2 | 1 | 50.0000 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | het | 93.7037 | 95.8333 | 91.6667 | 76.2376 | 23 | 1 | 22 | 2 | 1 | 50.0000 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | het | 93.7037 | 95.8333 | 91.6667 | 76.6990 | 23 | 1 | 22 | 2 | 1 | 50.0000 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 93.7037 | 91.6667 | 95.8333 | 85.4545 | 22 | 2 | 23 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | het | 93.7037 | 95.8333 | 91.6667 | 76.2376 | 23 | 1 | 22 | 2 | 1 | 50.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l250_m0_e0 | * | 93.7037 | 91.6667 | 95.8333 | 96.0461 | 22 | 2 | 23 | 1 | 0 | 0.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | het | 93.7037 | 95.8333 | 91.6667 | 77.1429 | 23 | 1 | 22 | 2 | 1 | 50.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | map_l250_m0_e0 | * | 93.7037 | 91.6667 | 95.8333 | 95.3307 | 22 | 2 | 23 | 1 | 0 | 0.0000 | |
| gduggal-snapfb | SNP | tv | map_l250_m0_e0 | het | 93.7015 | 94.9301 | 92.5043 | 90.6200 | 543 | 29 | 543 | 44 | 9 | 20.4545 | |
| gduggal-snapvard | SNP | * | map_l125_m2_e0 | * | 93.7014 | 96.5392 | 91.0256 | 79.3194 | 45106 | 1617 | 44517 | 4389 | 336 | 7.6555 | |
| jlack-gatk | SNP | * | map_l150_m2_e1 | het | 93.7014 | 98.9098 | 89.0141 | 86.6201 | 20141 | 222 | 20135 | 2485 | 178 | 7.1630 | |
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 93.7007 | 89.8148 | 97.9381 | 75.3181 | 97 | 11 | 95 | 2 | 1 | 50.0000 | |
| ckim-vqsr | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 93.6995 | 90.9091 | 96.6667 | 89.9833 | 60 | 6 | 58 | 2 | 0 | 0.0000 | |
| cchapple-custom | INDEL | D6_15 | map_l100_m1_e0 | het | 93.6988 | 94.4444 | 92.9648 | 84.0673 | 119 | 7 | 185 | 14 | 7 | 50.0000 | |
| gduggal-snapplat | SNP | * | map_l125_m1_e0 | het | 93.6975 | 93.4770 | 93.9190 | 83.9811 | 26540 | 1852 | 26565 | 1720 | 915 | 53.1977 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.6974 | 88.3019 | 99.7951 | 47.9744 | 468 | 62 | 487 | 1 | 1 | 100.0000 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.6972 | 90.3194 | 97.3376 | 61.4215 | 905 | 97 | 914 | 25 | 21 | 84.0000 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.6969 | 92.8325 | 94.5775 | 63.9536 | 5647 | 436 | 5529 | 317 | 301 | 94.9527 | |
| rpoplin-dv42 | INDEL | I6_15 | map_siren | * | 93.6968 | 90.1639 | 97.5177 | 81.7829 | 275 | 30 | 275 | 7 | 6 | 85.7143 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 93.6959 | 90.9221 | 96.6443 | 51.2348 | 3175 | 317 | 3168 | 110 | 81 | 73.6364 | |
| cchapple-custom | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.6951 | 91.3730 | 96.1384 | 58.0455 | 9204 | 869 | 12448 | 500 | 431 | 86.2000 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 93.6937 | 90.7254 | 96.8627 | 52.3369 | 1976 | 202 | 6638 | 215 | 185 | 86.0465 | |
| bgallagher-sentieon | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | * | 93.6937 | 91.2281 | 96.2963 | 99.4858 | 52 | 5 | 52 | 2 | 0 | 0.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.6937 | 88.1356 | 100.0000 | 73.7327 | 52 | 7 | 57 | 0 | 0 | ||
| ghariani-varprowl | INDEL | I1_5 | map_l150_m0_e0 | het | 93.6937 | 98.1132 | 89.6552 | 95.7571 | 104 | 2 | 104 | 12 | 3 | 25.0000 | |
| dgrover-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.6937 | 88.1356 | 100.0000 | 73.3645 | 52 | 7 | 57 | 0 | 0 | ||
| anovak-vg | SNP | tv | map_siren | homalt | 93.6911 | 88.7935 | 99.1605 | 53.2549 | 15308 | 1932 | 15238 | 129 | 93 | 72.0930 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 93.6879 | 91.8919 | 95.5556 | 85.9375 | 68 | 6 | 43 | 2 | 2 | 100.0000 | |
| gduggal-snapfb | SNP | ti | map_l250_m0_e0 | * | 93.6877 | 92.6277 | 94.7722 | 93.6399 | 1269 | 101 | 1269 | 70 | 31 | 44.2857 | |
| ckim-gatk | INDEL | * | map_l125_m0_e0 | het | 93.6867 | 98.2964 | 89.4900 | 93.6438 | 577 | 10 | 579 | 68 | 2 | 2.9412 | |
| jpowers-varprowl | INDEL | I1_5 | map_l125_m2_e0 | het | 93.6864 | 92.5553 | 94.8454 | 89.7981 | 460 | 37 | 460 | 25 | 18 | 72.0000 | |
| jlack-gatk | INDEL | * | map_l100_m2_e0 | het | 93.6860 | 98.1795 | 89.5858 | 89.8045 | 2265 | 42 | 2271 | 264 | 22 | 8.3333 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 93.6854 | 91.9137 | 95.5267 | 69.7908 | 682 | 60 | 662 | 31 | 19 | 61.2903 | |
| jlack-gatk | SNP | * | map_l150_m2_e0 | het | 93.6840 | 98.8973 | 88.9927 | 86.5727 | 19911 | 222 | 19905 | 2462 | 176 | 7.1487 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.6836 | 92.7338 | 94.6530 | 63.9970 | 5641 | 442 | 5523 | 312 | 296 | 94.8718 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 93.6827 | 88.3154 | 99.7447 | 41.6713 | 3114 | 412 | 3126 | 8 | 8 | 100.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 93.6827 | 88.3154 | 99.7447 | 41.6713 | 3114 | 412 | 3126 | 8 | 8 | 100.0000 | |
| ghariani-varprowl | INDEL | D1_5 | HG002complexvar | * | 93.6809 | 93.5932 | 93.7688 | 56.5500 | 30619 | 2096 | 30473 | 2025 | 1375 | 67.9012 | |
| gduggal-bwavard | INDEL | I1_5 | HG002complexvar | het | 93.6787 | 97.5535 | 90.0999 | 57.7758 | 17744 | 445 | 17310 | 1902 | 1663 | 87.4343 | |