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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
70451-70500 / 86044 show all | |||||||||||||||
| ckim-vqsr | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.7765 | 93.8813 | 99.8559 | 30.0168 | 2056 | 134 | 2079 | 3 | 3 | 100.0000 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.7765 | 93.8813 | 99.8559 | 30.0168 | 2056 | 134 | 2079 | 3 | 3 | 100.0000 | |
| rpoplin-dv42 | INDEL | * | map_l125_m1_e0 | * | 98.0229 | 97.5795 | 98.4704 | 98.6389 | 2056 | 51 | 2060 | 32 | 13 | 40.6250 | |
| mlin-fermikit | SNP | tv | map_l150_m1_e0 | homalt | 59.5283 | 52.1287 | 69.3761 | 55.9108 | 2057 | 1889 | 2057 | 908 | 841 | 92.6211 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 80.3087 | 86.8666 | 74.6716 | 81.1723 | 2057 | 311 | 2444 | 829 | 438 | 52.8347 | |
| ciseli-custom | INDEL | D6_15 | HG002complexvar | het | 69.9812 | 65.9506 | 74.5366 | 56.4774 | 2057 | 1062 | 2131 | 728 | 196 | 26.9231 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 82.2614 | 82.5180 | 82.0064 | 76.8116 | 2058 | 436 | 2060 | 452 | 11 | 2.4336 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 90.3274 | 94.4904 | 86.5158 | 75.9742 | 2058 | 120 | 1835 | 286 | 264 | 92.3077 | |
| egarrison-hhga | INDEL | * | map_l125_m1_e0 | * | 97.9556 | 97.7219 | 98.1905 | 98.1653 | 2059 | 48 | 2062 | 38 | 14 | 36.8421 | |
| ckim-isaac | SNP | tv | map_l150_m0_e0 | * | 66.0468 | 49.3531 | 99.8062 | 82.1762 | 2060 | 2114 | 2060 | 4 | 1 | 25.0000 | |
| ckim-dragen | SNP | * | map_l250_m0_e0 | * | 96.2167 | 96.4871 | 95.9478 | 93.2896 | 2060 | 75 | 2060 | 87 | 9 | 10.3448 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.0450 | 87.0668 | 99.9048 | 30.8983 | 2060 | 306 | 2098 | 2 | 2 | 100.0000 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 0.0000 | 87.1090 | 0.0000 | 0.0000 | 2061 | 305 | 0 | 0 | 0 | ||
| ghariani-varprowl | SNP | * | map_l250_m0_e0 | * | 92.9666 | 96.5808 | 89.6132 | 94.6918 | 2062 | 73 | 2062 | 239 | 29 | 12.1339 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 96.3827 | 95.6865 | 97.0892 | 81.8383 | 2063 | 93 | 2068 | 62 | 26 | 41.9355 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 92.1502 | 94.7199 | 89.7161 | 77.6402 | 2063 | 115 | 1928 | 221 | 141 | 63.8009 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.5450 | 87.1936 | 98.5962 | 31.1755 | 2063 | 303 | 2107 | 30 | 29 | 96.6667 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 92.9768 | 87.2358 | 99.5265 | 30.0431 | 2064 | 302 | 2102 | 10 | 10 | 100.0000 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 54.8494 | 87.1622 | 40.0150 | 81.6424 | 2064 | 304 | 2128 | 3190 | 200 | 6.2696 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 67.9939 | 52.5579 | 96.2669 | 70.6277 | 2065 | 1864 | 2063 | 80 | 56 | 70.0000 | |
| gduggal-bwafb | SNP | * | map_l250_m0_e0 | * | 97.1993 | 96.7213 | 97.6821 | 93.5570 | 2065 | 70 | 2065 | 49 | 15 | 30.6122 | |
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 95.2056 | 96.5856 | 93.8645 | 49.5961 | 2065 | 73 | 2050 | 134 | 7 | 5.2239 | |
| gduggal-bwaplat | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 64.8666 | 51.1386 | 88.6695 | 86.4061 | 2066 | 1974 | 2066 | 264 | 62 | 23.4848 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 89.6701 | 85.6906 | 94.0373 | 58.9423 | 2066 | 345 | 2066 | 131 | 124 | 94.6565 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 81.5800 | 75.0000 | 89.4256 | 42.8500 | 2067 | 689 | 2055 | 243 | 230 | 94.6502 | |
| jmaeng-gatk | INDEL | * | map_l125_m1_e0 | * | 96.6159 | 98.1016 | 95.1746 | 90.8498 | 2067 | 40 | 2071 | 105 | 11 | 10.4762 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.2379 | 87.4049 | 99.9050 | 31.0740 | 2068 | 298 | 2103 | 2 | 2 | 100.0000 | |
| ciseli-custom | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 88.9790 | 96.7259 | 82.3810 | 40.2277 | 2068 | 70 | 2076 | 444 | 4 | 0.9009 | |
| ckim-dragen | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.0913 | 94.4749 | 99.8568 | 32.8741 | 2069 | 121 | 2092 | 3 | 3 | 100.0000 | |
| mlin-fermikit | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.0340 | 96.7727 | 99.3285 | 36.5490 | 2069 | 69 | 2071 | 14 | 0 | 0.0000 | |
| jlack-gatk | SNP | * | map_l250_m0_e0 | * | 91.3907 | 96.9555 | 86.4301 | 95.6372 | 2070 | 65 | 2070 | 325 | 28 | 8.6154 | |
| rpoplin-dv42 | SNP | * | map_l250_m0_e0 | * | 97.4806 | 96.9555 | 98.0114 | 92.0139 | 2070 | 65 | 2070 | 42 | 27 | 64.2857 | |
| egarrison-hhga | SNP | * | map_l250_m0_e0 | * | 98.0810 | 96.9555 | 99.2330 | 92.5099 | 2070 | 65 | 2070 | 16 | 6 | 37.5000 | |
| dgrover-gatk | INDEL | * | map_l125_m1_e0 | * | 98.3163 | 98.2914 | 98.3412 | 88.3670 | 2071 | 36 | 2075 | 35 | 8 | 22.8571 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.1847 | 94.5662 | 99.9523 | 34.2023 | 2071 | 119 | 2094 | 1 | 1 | 100.0000 | |
| jlack-gatk | INDEL | * | map_l125_m1_e0 | * | 94.7690 | 98.2914 | 91.4903 | 90.0770 | 2071 | 36 | 2075 | 193 | 12 | 6.2176 | |
| mlin-fermikit | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 78.7662 | 69.4733 | 90.9290 | 52.5276 | 2071 | 910 | 2075 | 207 | 206 | 99.5169 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.3437 | 96.0575 | 98.6648 | 74.3831 | 2071 | 85 | 2069 | 28 | 19 | 67.8571 | |
| jli-custom | INDEL | * | map_l125_m1_e0 | * | 98.5968 | 98.3389 | 98.8561 | 85.7695 | 2072 | 35 | 2074 | 24 | 8 | 33.3333 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.1515 | 96.1503 | 98.1737 | 71.9585 | 2073 | 83 | 2204 | 41 | 32 | 78.0488 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 93.1933 | 87.6162 | 99.5285 | 30.2073 | 2073 | 293 | 2111 | 10 | 10 | 100.0000 | |
| gduggal-bwavard | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 97.5197 | 96.9598 | 98.0861 | 47.0350 | 2073 | 65 | 2050 | 40 | 13 | 32.5000 | |
| anovak-vg | INDEL | * | HG002compoundhet | het | 52.7411 | 50.6595 | 55.0010 | 54.9014 | 2074 | 2020 | 13874 | 11351 | 7959 | 70.1172 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 83.8258 | 90.7659 | 77.8716 | 35.7639 | 2074 | 211 | 2305 | 655 | 476 | 72.6718 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.3931 | 96.1967 | 98.6197 | 73.1673 | 2074 | 82 | 2072 | 29 | 15 | 51.7241 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 97.0720 | 97.0065 | 97.1375 | 69.1696 | 2074 | 64 | 2070 | 61 | 54 | 88.5246 | |
| jpowers-varprowl | INDEL | I16_PLUS | * | het | 66.0542 | 76.3061 | 58.2307 | 60.8634 | 2074 | 644 | 2080 | 1492 | 1486 | 99.5979 | |
| ghariani-varprowl | INDEL | * | map_l125_m2_e0 | * | 91.8919 | 94.4444 | 89.4737 | 94.0645 | 2074 | 122 | 2074 | 244 | 79 | 32.3770 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_triTR_11to50 | het | 96.7565 | 97.0533 | 96.4614 | 41.7715 | 2075 | 63 | 2099 | 77 | 36 | 46.7532 | |
| gduggal-bwaplat | SNP | ti | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 96.9853 | 94.2753 | 99.8558 | 44.2957 | 2075 | 126 | 2077 | 3 | 1 | 33.3333 | |