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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
10601-10650 / 86044 show all | |||||||||||||||
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.4518 | 99.2381 | 99.6663 | 75.2850 | 5080 | 39 | 5078 | 17 | 10 | 58.8235 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.2477 | 99.2381 | 99.2572 | 75.1119 | 5080 | 39 | 5078 | 38 | 20 | 52.6316 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3929 | 99.1600 | 99.6269 | 75.2923 | 5076 | 43 | 5074 | 19 | 13 | 68.4211 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.2881 | 95.5213 | 99.1216 | 64.1698 | 5076 | 238 | 5078 | 45 | 35 | 77.7778 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 96.2898 | 93.2880 | 99.4913 | 26.4604 | 5073 | 365 | 5085 | 26 | 21 | 80.7692 | |
| hfeng-pmm2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.0240 | 99.1401 | 98.9082 | 42.6607 | 5073 | 44 | 5073 | 56 | 56 | 100.0000 | |
| gduggal-snapvard | SNP | * | map_l250_m2_e1 | het | 82.0702 | 96.3526 | 71.4754 | 92.4111 | 5072 | 192 | 5019 | 2003 | 93 | 4.6430 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 94.4108 | 90.6200 | 98.5326 | 48.7374 | 5072 | 525 | 11281 | 168 | 144 | 85.7143 | |
| raldana-dualsentieon | SNP | * | map_l250_m2_e0 | het | 97.5099 | 97.6319 | 97.3881 | 89.3936 | 5071 | 123 | 5071 | 136 | 3 | 2.2059 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.9317 | 95.4084 | 98.5046 | 64.3470 | 5070 | 244 | 5072 | 77 | 69 | 89.6104 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.4214 | 99.0232 | 99.8227 | 73.4004 | 5069 | 50 | 5067 | 9 | 3 | 33.3333 | |
| gduggal-bwaplat | SNP | * | map_l150_m2_e1 | homalt | 59.9917 | 42.8596 | 99.9408 | 85.5254 | 5069 | 6758 | 5065 | 3 | 3 | 100.0000 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3726 | 99.0232 | 99.7245 | 73.4687 | 5069 | 50 | 5067 | 14 | 4 | 28.5714 | |
| asubramanian-gatk | SNP | tv | map_l125_m2_e1 | * | 46.6345 | 30.4256 | 99.8030 | 92.2720 | 5068 | 11589 | 5067 | 10 | 2 | 20.0000 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.3529 | 98.9842 | 99.7244 | 73.0843 | 5067 | 52 | 5065 | 14 | 7 | 50.0000 | |
| ckim-vqsr | SNP | ti | map_l125_m0_e0 | het | 75.6119 | 61.3095 | 98.6179 | 91.4278 | 5066 | 3197 | 5066 | 71 | 0 | 0.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 99.4112 | 98.9838 | 99.8424 | 34.1207 | 5065 | 52 | 5068 | 8 | 8 | 100.0000 | |
| mlin-fermikit | SNP | tv | map_l100_m0_e0 | * | 58.6013 | 45.6875 | 81.6920 | 55.0247 | 5064 | 6020 | 5060 | 1134 | 1011 | 89.1534 | |
| eyeh-varpipe | SNP | ti | map_l150_m0_e0 | het | 98.2368 | 99.2937 | 97.2021 | 84.3948 | 5061 | 36 | 4968 | 143 | 4 | 2.7972 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.1381 | 98.8474 | 99.4304 | 72.0835 | 5060 | 59 | 5237 | 30 | 24 | 80.0000 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.2643 | 98.8474 | 99.6847 | 73.5302 | 5060 | 59 | 5058 | 16 | 12 | 75.0000 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.2445 | 98.8084 | 99.6845 | 73.8057 | 5058 | 61 | 5056 | 16 | 7 | 43.7500 | |
| cchapple-custom | INDEL | D6_15 | HG002complexvar | * | 96.6422 | 95.3791 | 97.9391 | 52.4803 | 5057 | 245 | 5085 | 107 | 98 | 91.5888 | |
| egarrison-hhga | SNP | * | map_l250_m2_e0 | het | 98.3259 | 97.2468 | 99.4291 | 88.5758 | 5051 | 143 | 5051 | 29 | 11 | 37.9310 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.8158 | 98.6325 | 98.9998 | 83.5908 | 5049 | 70 | 5048 | 51 | 37 | 72.5490 | |
| qzeng-custom | SNP | * | map_l250_m2_e0 | * | 75.7461 | 64.0330 | 92.7037 | 95.4455 | 5049 | 2836 | 5006 | 394 | 328 | 83.2487 | |
| ndellapenna-hhga | SNP | * | map_l250_m2_e1 | het | 97.6025 | 95.8967 | 99.3701 | 87.9415 | 5048 | 216 | 5048 | 32 | 14 | 43.7500 | |
| eyeh-varpipe | SNP | ti | map_l250_m2_e1 | * | 99.0209 | 99.4484 | 98.5971 | 90.5779 | 5048 | 28 | 4990 | 71 | 6 | 8.4507 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 93.8012 | 88.8400 | 99.3492 | 39.7743 | 5047 | 634 | 5038 | 33 | 25 | 75.7576 | |
| anovak-vg | SNP | * | map_l125_m0_e0 | homalt | 85.5602 | 75.1937 | 99.2421 | 70.8421 | 5047 | 1665 | 4976 | 38 | 33 | 86.8421 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 51.1782 | 35.9607 | 88.7235 | 60.7545 | 5046 | 8986 | 5067 | 644 | 550 | 85.4037 | |
| hfeng-pmm2 | SNP | ti | map_l150_m0_e0 | het | 98.5736 | 98.9994 | 98.1514 | 83.2987 | 5046 | 51 | 5044 | 95 | 8 | 8.4211 | |
| bgallagher-sentieon | SNP | ti | map_l150_m0_e0 | het | 98.4386 | 98.9798 | 97.9033 | 83.1082 | 5045 | 52 | 5043 | 108 | 15 | 13.8889 | |
| hfeng-pmm3 | SNP | ti | map_l150_m0_e0 | het | 99.0183 | 98.9602 | 99.0764 | 81.1323 | 5044 | 53 | 5042 | 47 | 2 | 4.2553 | |
| gduggal-bwafb | SNP | * | map_l250_m2_e0 | het | 97.2051 | 97.0928 | 97.3176 | 90.2537 | 5043 | 151 | 5043 | 139 | 33 | 23.7410 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.2419 | 94.8438 | 97.6819 | 61.2333 | 5040 | 274 | 6110 | 145 | 131 | 90.3448 | |
| anovak-vg | INDEL | I6_15 | * | homalt | 61.4755 | 80.7661 | 49.6232 | 33.6435 | 5039 | 1200 | 5202 | 5281 | 4685 | 88.7143 | |
| cchapple-custom | SNP | * | map_l250_m2_e1 | het | 95.2117 | 95.7257 | 94.7032 | 91.6862 | 5039 | 225 | 5042 | 282 | 65 | 23.0496 | |
| gduggal-snapfb | SNP | * | map_l250_m2_e1 | het | 94.2221 | 95.7257 | 92.7651 | 87.6052 | 5039 | 225 | 5039 | 393 | 175 | 44.5293 | |
| ckim-dragen | SNP | * | map_l250_m2_e0 | het | 96.3481 | 96.9965 | 95.7083 | 91.3532 | 5038 | 156 | 5040 | 226 | 15 | 6.6372 | |
| gduggal-snapvard | INDEL | I1_5 | HG002compoundhet | * | 44.4193 | 40.7689 | 48.7878 | 63.5182 | 5037 | 7318 | 5393 | 5661 | 4783 | 84.4904 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.6299 | 98.3786 | 98.8826 | 80.6311 | 5036 | 83 | 5044 | 57 | 14 | 24.5614 | |
| mlin-fermikit | SNP | tv | map_l150_m2_e1 | * | 57.3730 | 43.7750 | 83.2258 | 66.7620 | 5035 | 6467 | 5031 | 1014 | 885 | 87.2781 | |
| dgrover-gatk | SNP | ti | map_l150_m0_e0 | het | 98.5705 | 98.7836 | 98.3584 | 84.6267 | 5035 | 62 | 5033 | 84 | 15 | 17.8571 | |
| hfeng-pmm3 | SNP | ti | map_l250_m2_e1 | * | 99.1724 | 99.1529 | 99.1920 | 88.8826 | 5033 | 43 | 5033 | 41 | 5 | 12.1951 | |
| hfeng-pmm2 | SNP | ti | map_l250_m2_e1 | * | 98.8122 | 99.1529 | 98.4739 | 90.0047 | 5033 | 43 | 5033 | 78 | 9 | 11.5385 | |
| mlin-fermikit | SNP | ti | map_l150_m2_e0 | het | 55.8942 | 39.0731 | 98.1471 | 68.9855 | 5033 | 7848 | 5032 | 95 | 5 | 5.2632 | |
| hfeng-pmm1 | INDEL | D6_15 | HG002complexvar | * | 97.1047 | 94.8887 | 99.4267 | 56.6618 | 5031 | 271 | 5029 | 29 | 25 | 86.2069 | |
| gduggal-snapfb | INDEL | I6_15 | HG002compoundhet | * | 66.9443 | 57.2812 | 80.5291 | 25.2164 | 5027 | 3749 | 5844 | 1413 | 1393 | 98.5846 | |
| qzeng-custom | INDEL | D6_15 | HG002complexvar | * | 93.7910 | 94.8133 | 92.7906 | 55.1605 | 5027 | 275 | 5277 | 410 | 156 | 38.0488 | |