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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
43051-43100 / 86044 show all | |||||||||||||||
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 90.7286 | 91.6605 | 89.8154 | 74.1565 | 1242 | 113 | 1314 | 149 | 130 | 87.2483 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 93.0233 | 86.9565 | 100.0000 | 74.1573 | 20 | 3 | 23 | 0 | 0 | ||
| gduggal-snapfb | SNP | tv | map_l125_m1_e0 | * | 96.8139 | 97.2340 | 96.3974 | 74.1586 | 15573 | 443 | 15573 | 582 | 212 | 36.4261 | |
| ckim-isaac | INDEL | I1_5 | HG002compoundhet | het | 60.5332 | 77.1765 | 49.7948 | 74.1605 | 656 | 194 | 728 | 734 | 607 | 82.6975 | |
| gduggal-snapvard | INDEL | I1_5 | map_l100_m2_e0 | homalt | 94.4658 | 90.2072 | 99.1465 | 74.1639 | 479 | 52 | 697 | 6 | 3 | 50.0000 | |
| ltrigg-rtg1 | INDEL | I1_5 | map_l100_m1_e0 | het | 97.2316 | 94.9807 | 99.5918 | 74.1652 | 738 | 39 | 732 | 3 | 0 | 0.0000 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 33.8478 | 32.4294 | 35.3960 | 74.1660 | 861 | 1794 | 858 | 1566 | 1515 | 96.7433 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 53.8527 | 45.9807 | 64.9770 | 74.1667 | 143 | 168 | 141 | 76 | 67 | 88.1579 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 72.3612 | 91.8919 | 59.6774 | 74.1667 | 136 | 12 | 111 | 75 | 74 | 98.6667 | |
| gduggal-snapplat | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 90.1322 | 86.5088 | 94.0725 | 74.1670 | 24187 | 3772 | 24250 | 1528 | 165 | 10.7984 | |
| ckim-vqsr | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.7083 | 99.4905 | 99.9270 | 74.1698 | 1367 | 7 | 1368 | 1 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 95.2381 | 90.9091 | 100.0000 | 74.1722 | 40 | 4 | 39 | 0 | 0 | ||
| gduggal-bwafb | SNP | tv | map_l125_m0_e0 | homalt | 99.2297 | 98.6042 | 99.8632 | 74.1727 | 2190 | 31 | 2190 | 3 | 3 | 100.0000 | |
| anovak-vg | SNP | tv | map_l100_m2_e0 | het | 80.0810 | 92.3877 | 70.6676 | 74.1753 | 14576 | 1201 | 14566 | 6046 | 1273 | 21.0552 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 20.7177 | 14.5161 | 36.1702 | 74.1758 | 27 | 159 | 17 | 30 | 17 | 56.6667 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 85.5631 | 82.9787 | 88.3137 | 74.1798 | 1131 | 232 | 1126 | 149 | 144 | 96.6443 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 83.6454 | 99.5085 | 72.1445 | 74.1800 | 1822 | 9 | 1857 | 717 | 13 | 1.8131 | |
| dgrover-gatk | SNP | * | map_l150_m0_e0 | homalt | 99.3242 | 98.8506 | 99.8025 | 74.1808 | 4042 | 47 | 4042 | 8 | 6 | 75.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8893 | 100.0000 | 99.7788 | 74.1813 | 1353 | 0 | 1353 | 3 | 1 | 33.3333 | |
| ckim-isaac | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 92.7431 | 89.6335 | 96.0762 | 74.1823 | 856 | 99 | 857 | 35 | 22 | 62.8571 | |
| mlin-fermikit | INDEL | D1_5 | map_siren | het | 85.2572 | 76.0650 | 96.9765 | 74.1833 | 1732 | 545 | 1732 | 54 | 36 | 66.6667 | |
| rpoplin-dv42 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 96.5116 | 93.2584 | 100.0000 | 74.1835 | 166 | 12 | 166 | 0 | 0 | ||
| ndellapenna-hhga | SNP | * | map_l125_m0_e0 | het | 98.3855 | 97.2047 | 99.5955 | 74.1909 | 12310 | 354 | 12310 | 50 | 23 | 46.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 64.4567 | 61.1138 | 68.1865 | 74.1910 | 1284 | 817 | 1316 | 614 | 580 | 94.4625 | |
| anovak-vg | SNP | tv | map_l100_m2_e1 | het | 80.1681 | 92.4332 | 70.7766 | 74.1911 | 14732 | 1206 | 14718 | 6077 | 1278 | 21.0301 | |
| egarrison-hhga | SNP | * | map_l150_m0_e0 | homalt | 99.6815 | 99.4864 | 99.8772 | 74.1921 | 4068 | 21 | 4068 | 5 | 5 | 100.0000 | |
| egarrison-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 88.5478 | 83.8926 | 93.7500 | 74.1935 | 125 | 24 | 120 | 8 | 6 | 75.0000 | |
| jpowers-varprowl | INDEL | I16_PLUS | map_l100_m0_e0 | het | 75.0000 | 75.0000 | 75.0000 | 74.1935 | 6 | 2 | 6 | 2 | 2 | 100.0000 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 36.2460 | 22.8571 | 87.5000 | 74.1935 | 8 | 27 | 7 | 1 | 1 | 100.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | func_cds | * | 78.5714 | 91.6667 | 68.7500 | 74.1935 | 11 | 1 | 11 | 5 | 1 | 20.0000 | |
| gduggal-snapfb | INDEL | C1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 74.1935 | 0 | 0 | 0 | 8 | 0 | 0.0000 | ||
| ltrigg-rtg2 | SNP | * | map_l250_m1_e0 | het | 95.5463 | 91.5878 | 99.8624 | 74.1983 | 4355 | 400 | 4355 | 6 | 1 | 16.6667 | |
| ghariani-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 94.6036 | 99.2382 | 90.3825 | 74.1987 | 2475 | 19 | 2481 | 264 | 1 | 0.3788 | |
| gduggal-snapfb | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 44.2331 | 96.9758 | 28.6507 | 74.2013 | 962 | 30 | 981 | 2443 | 19 | 0.7777 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 96.7742 | 93.7500 | 100.0000 | 74.2015 | 105 | 7 | 105 | 0 | 0 | ||
| raldana-dualsentieon | SNP | tv | map_l150_m1_e0 | * | 98.9969 | 99.0469 | 98.9470 | 74.2022 | 10808 | 104 | 10806 | 115 | 3 | 2.6087 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 80.3030 | 89.8305 | 72.6027 | 74.2049 | 53 | 6 | 53 | 20 | 19 | 95.0000 | |
| gduggal-bwafb | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.6316 | 99.0933 | 94.2892 | 74.2061 | 3060 | 28 | 3071 | 186 | 41 | 22.0430 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 98.6521 | 97.7707 | 99.5495 | 74.2085 | 921 | 21 | 884 | 4 | 3 | 75.0000 | |
| ciseli-custom | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 73.7262 | 74.1156 | 73.3408 | 74.2090 | 70000 | 24447 | 70171 | 25507 | 16983 | 66.5817 | |
| gduggal-snapfb | SNP | tv | map_l125_m2_e0 | het | 96.3724 | 97.9506 | 94.8442 | 74.2096 | 10228 | 214 | 10228 | 556 | 207 | 37.2302 | |
| jlack-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.4903 | 99.4178 | 99.5630 | 74.2111 | 1366 | 8 | 1367 | 6 | 0 | 0.0000 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.6820 | 99.5032 | 99.8615 | 74.2124 | 3605 | 18 | 3605 | 5 | 1 | 20.0000 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.1781 | 98.5667 | 99.7971 | 74.2130 | 2957 | 43 | 2951 | 6 | 3 | 50.0000 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 94.2258 | 91.1111 | 97.5610 | 74.2138 | 41 | 4 | 40 | 1 | 1 | 100.0000 | |
| mlin-fermikit | INDEL | * | HG002compoundhet | homalt | 32.9688 | 92.1283 | 20.0767 | 74.2148 | 632 | 54 | 628 | 2500 | 2465 | 98.6000 | |
| dgrover-gatk | SNP | * | map_l125_m2_e0 | * | 99.3279 | 99.3194 | 99.3363 | 74.2156 | 46405 | 318 | 46399 | 310 | 69 | 22.2581 | |
| jli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 99.8135 | 99.6690 | 99.9585 | 74.2163 | 2409 | 8 | 2409 | 1 | 1 | 100.0000 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8893 | 100.0000 | 99.7788 | 74.2205 | 1353 | 0 | 1353 | 3 | 1 | 33.3333 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8893 | 100.0000 | 99.7788 | 74.2205 | 1353 | 0 | 1353 | 3 | 1 | 33.3333 | |