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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
66851-66900 / 86044 show all | |||||||||||||||
| jmaeng-gatk | INDEL | D6_15 | HG002complexvar | homalt | 99.3614 | 99.8289 | 98.8983 | 63.0673 | 1167 | 2 | 1167 | 13 | 12 | 92.3077 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.2109 | 98.7310 | 88.2753 | 60.4783 | 1167 | 15 | 1167 | 155 | 153 | 98.7097 | |
| gduggal-snapfb | INDEL | * | map_l100_m1_e0 | homalt | 96.6439 | 95.0285 | 98.3151 | 86.5465 | 1166 | 61 | 1167 | 20 | 12 | 60.0000 | |
| gduggal-bwaplat | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 82.5318 | 70.7702 | 98.9822 | 46.3359 | 1167 | 482 | 1167 | 12 | 11 | 91.6667 | |
| ckim-vqsr | INDEL | D1_5 | map_l100_m1_e0 | het | 96.5230 | 96.3606 | 96.6860 | 89.4465 | 1165 | 44 | 1167 | 40 | 4 | 10.0000 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 68.3405 | 57.5940 | 84.0173 | 50.8840 | 766 | 564 | 1167 | 222 | 125 | 56.3063 | |
| gduggal-snapvard | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 63.5738 | 47.4907 | 96.1285 | 37.8710 | 1022 | 1130 | 1167 | 47 | 44 | 93.6170 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 46.0578 | 34.1432 | 70.7450 | 74.8821 | 1321 | 2548 | 1168 | 483 | 147 | 30.4348 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.6903 | 99.1511 | 98.2338 | 72.3424 | 1168 | 10 | 1168 | 21 | 21 | 100.0000 | |
| ckim-vqsr | INDEL | D6_15 | HG002complexvar | homalt | 99.4466 | 99.9145 | 98.9831 | 63.0094 | 1168 | 1 | 1168 | 12 | 11 | 91.6667 | |
| ckim-gatk | INDEL | D6_15 | HG002complexvar | homalt | 99.4466 | 99.9145 | 98.9831 | 63.0094 | 1168 | 1 | 1168 | 12 | 11 | 91.6667 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 88.9231 | 98.9002 | 80.7746 | 59.1871 | 1169 | 13 | 1168 | 278 | 276 | 99.2806 | |
| eyeh-varpipe | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 96.4666 | 99.0196 | 94.0419 | 60.5213 | 1212 | 12 | 1168 | 74 | 18 | 24.3243 | |
| jli-custom | INDEL | D6_15 | HG002complexvar | homalt | 99.7015 | 100.0000 | 99.4048 | 61.4173 | 1169 | 0 | 1169 | 7 | 7 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D1_5 | map_l100_m1_e0 | het | 97.9933 | 97.0223 | 98.9839 | 74.5035 | 1173 | 36 | 1169 | 12 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 92.2288 | 98.9002 | 86.4006 | 59.8278 | 1169 | 13 | 1169 | 184 | 183 | 99.4565 | |
| bgallagher-sentieon | INDEL | D6_15 | HG002complexvar | homalt | 99.0678 | 100.0000 | 98.1528 | 62.7696 | 1169 | 0 | 1169 | 22 | 21 | 95.4545 | |
| astatham-gatk | INDEL | D6_15 | HG002complexvar | homalt | 99.4894 | 100.0000 | 98.9839 | 62.9548 | 1169 | 0 | 1169 | 12 | 12 | 100.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.1528 | 99.2360 | 97.0930 | 73.2444 | 1169 | 9 | 1169 | 35 | 35 | 100.0000 | |
| asubramanian-gatk | SNP | * | map_l125_m0_e0 | homalt | 29.6663 | 17.4166 | 100.0000 | 92.5404 | 1169 | 5543 | 1169 | 0 | 0 | ||
| raldana-dualsentieon | INDEL | D6_15 | HG002complexvar | homalt | 99.4894 | 100.0000 | 98.9839 | 62.5911 | 1169 | 0 | 1169 | 12 | 12 | 100.0000 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.0294 | 99.2360 | 96.8517 | 72.5744 | 1169 | 9 | 1169 | 38 | 38 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.2353 | 99.2360 | 97.2546 | 73.3953 | 1169 | 9 | 1169 | 33 | 33 | 100.0000 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 99.3614 | 98.7310 | 100.0000 | 27.9729 | 1167 | 15 | 1169 | 0 | 0 | ||
| ckim-vqsr | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.2766 | 99.2360 | 97.3356 | 73.4116 | 1169 | 9 | 1169 | 32 | 32 | 100.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.6324 | 98.9002 | 88.8973 | 60.3677 | 1169 | 13 | 1169 | 146 | 145 | 99.3151 | |
| dgrover-gatk | INDEL | D6_15 | HG002complexvar | homalt | 99.4048 | 100.0000 | 98.8166 | 62.8338 | 1169 | 0 | 1169 | 14 | 14 | 100.0000 | |
| dgrover-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.2368 | 99.3209 | 97.1761 | 73.3746 | 1170 | 8 | 1170 | 34 | 34 | 100.0000 | |
| egarrison-hhga | INDEL | I16_PLUS | HG002complexvar | * | 92.4901 | 89.3812 | 95.8231 | 64.9842 | 1170 | 139 | 1170 | 51 | 30 | 58.8235 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.5626 | 98.9848 | 88.7036 | 60.4379 | 1170 | 12 | 1170 | 149 | 147 | 98.6577 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.6375 | 98.9848 | 88.8383 | 60.2115 | 1170 | 12 | 1170 | 147 | 145 | 98.6395 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.7852 | 99.3209 | 96.2963 | 73.0778 | 1170 | 8 | 1170 | 45 | 45 | 100.0000 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.1956 | 99.3209 | 97.0954 | 73.3937 | 1170 | 8 | 1170 | 35 | 35 | 100.0000 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 52.5500 | 71.5640 | 41.5188 | 24.1862 | 151 | 60 | 1170 | 1648 | 1641 | 99.5752 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.9869 | 94.2259 | 99.9146 | 34.2135 | 1126 | 69 | 1170 | 1 | 1 | 100.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.1639 | 94.5607 | 99.9146 | 34.3978 | 1130 | 65 | 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 | |
| hfeng-pmm3 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 95.7839 | 92.4901 | 99.3209 | 86.5999 | 1170 | 95 | 1170 | 8 | 3 | 37.5000 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.4878 | 98.9848 | 88.5693 | 60.4017 | 1170 | 12 | 1170 | 151 | 149 | 98.6755 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 93.7749 | 88.6135 | 99.5748 | 31.3084 | 1144 | 147 | 1171 | 5 | 5 | 100.0000 | |
| asubramanian-gatk | INDEL | * | map_l125_m2_e1 | het | 88.1973 | 83.0256 | 94.0562 | 92.2786 | 1169 | 239 | 1171 | 74 | 7 | 9.4595 | |
| gduggal-bwaplat | SNP | tv | map_l150_m0_e0 | het | 58.2153 | 41.1889 | 99.2373 | 95.9951 | 1171 | 1672 | 1171 | 9 | 4 | 44.4444 | |
| gduggal-bwavard | INDEL | * | map_l100_m2_e0 | homalt | 95.9415 | 92.7835 | 99.3220 | 77.0294 | 1170 | 91 | 1172 | 8 | 5 | 62.5000 | |
| jli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.4868 | 99.3209 | 97.6667 | 72.1900 | 1170 | 8 | 1172 | 28 | 28 | 100.0000 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 90.4777 | 92.0158 | 88.9901 | 86.8129 | 1164 | 101 | 1172 | 145 | 90 | 62.0690 | |
| qzeng-custom | INDEL | * | map_l150_m1_e0 | * | 80.7260 | 70.7025 | 94.0610 | 93.9470 | 946 | 392 | 1172 | 74 | 36 | 48.6486 | |
| asubramanian-gatk | INDEL | I1_5 | map_l100_m2_e0 | * | 91.2346 | 85.1608 | 98.2412 | 87.9589 | 1165 | 203 | 1173 | 21 | 4 | 19.0476 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 66.0268 | 75.3467 | 58.7588 | 41.5789 | 489 | 160 | 1174 | 824 | 725 | 87.9854 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.2459 | 94.4805 | 98.0785 | 59.8187 | 1164 | 68 | 1174 | 23 | 10 | 43.4783 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 95.5301 | 93.6306 | 97.5083 | 72.4674 | 1176 | 80 | 1174 | 30 | 1 | 3.3333 | |