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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
68151-68200 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | INDEL | I1_5 | map_l100_m2_e1 | * | 98.9946 | 98.7097 | 99.2811 | 82.7868 | 1377 | 18 | 1381 | 10 | 3 | 30.0000 | |
| ckim-vqsr | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.9276 | 99.8554 | 100.0000 | 56.9648 | 1381 | 2 | 1381 | 0 | 0 | ||
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 93.1495 | 88.0107 | 98.9255 | 35.6682 | 1314 | 179 | 1381 | 15 | 14 | 93.3333 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 91.5169 | 89.7281 | 93.3784 | 46.7817 | 1485 | 170 | 1382 | 98 | 58 | 59.1837 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.7474 | 99.9277 | 99.5677 | 58.0918 | 1382 | 1 | 1382 | 6 | 0 | 0.0000 | |
| qzeng-custom | INDEL | * | map_l100_m2_e1 | homalt | 85.5777 | 78.8447 | 93.5680 | 81.7812 | 1010 | 271 | 1382 | 95 | 15 | 15.7895 | |
| ckim-gatk | INDEL | I1_5 | map_l100_m2_e1 | * | 98.0472 | 98.7814 | 97.3239 | 88.0481 | 1378 | 17 | 1382 | 38 | 5 | 13.1579 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.9638 | 99.9277 | 100.0000 | 56.9470 | 1382 | 1 | 1382 | 0 | 0 | ||
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.9638 | 99.9277 | 100.0000 | 57.3061 | 1382 | 1 | 1382 | 0 | 0 | ||
| jli-custom | INDEL | * | map_l125_m2_e1 | het | 98.3616 | 98.0114 | 98.7143 | 86.9876 | 1380 | 28 | 1382 | 18 | 4 | 22.2222 | |
| jmaeng-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.9638 | 99.9277 | 100.0000 | 57.4376 | 1382 | 1 | 1382 | 0 | 0 | ||
| jli-custom | INDEL | I1_5 | map_l100_m2_e1 | * | 99.2452 | 98.9247 | 99.5677 | 82.8600 | 1380 | 15 | 1382 | 6 | 3 | 50.0000 | |
| jli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 100.0000 | 100.0000 | 100.0000 | 57.1429 | 1383 | 0 | 1383 | 0 | 0 | ||
| jmaeng-gatk | INDEL | * | map_l150_m2_e0 | * | 95.8724 | 97.9403 | 93.8900 | 93.2577 | 1379 | 29 | 1383 | 90 | 9 | 10.0000 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 88.0893 | 78.8037 | 99.8556 | 25.8168 | 3175 | 854 | 1383 | 2 | 2 | 100.0000 | |
| ckim-isaac | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 96.9804 | 94.2019 | 99.9277 | 38.3793 | 1381 | 85 | 1383 | 1 | 1 | 100.0000 | |
| dgrover-gatk | INDEL | I1_5 | map_l100_m2_e1 | * | 98.9962 | 98.8530 | 99.1398 | 85.2131 | 1379 | 16 | 1383 | 12 | 4 | 33.3333 | |
| dgrover-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 100.0000 | 100.0000 | 100.0000 | 57.1296 | 1383 | 0 | 1383 | 0 | 0 | ||
| egarrison-hhga | INDEL | * | map_l125_m2_e1 | het | 97.7684 | 97.7983 | 97.7385 | 87.3174 | 1377 | 31 | 1383 | 32 | 11 | 34.3750 | |
| raldana-dualsentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 100.0000 | 100.0000 | 100.0000 | 57.2621 | 1383 | 0 | 1383 | 0 | 0 | ||
| bgallagher-sentieon | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 100.0000 | 100.0000 | 100.0000 | 56.9829 | 1383 | 0 | 1383 | 0 | 0 | ||
| hfeng-pmm3 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 100.0000 | 100.0000 | 100.0000 | 57.5506 | 1383 | 0 | 1383 | 0 | 0 | ||
| hfeng-pmm1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 100.0000 | 100.0000 | 100.0000 | 57.8096 | 1383 | 0 | 1383 | 0 | 0 | ||
| hfeng-pmm2 | INDEL | I1_5 | map_l100_m2_e1 | * | 98.9254 | 98.8530 | 98.9979 | 84.4605 | 1379 | 16 | 1383 | 14 | 4 | 28.5714 | |
| hfeng-pmm2 | INDEL | D1_5 | HG002compoundhet | het | 87.2979 | 80.1505 | 95.8449 | 75.4255 | 1385 | 343 | 1384 | 60 | 57 | 95.0000 | |
| jli-custom | INDEL | * | map_l150_m2_e0 | * | 98.3640 | 98.1534 | 98.5755 | 89.3077 | 1382 | 26 | 1384 | 20 | 7 | 35.0000 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 88.1690 | 79.1569 | 99.4968 | 31.0362 | 1352 | 356 | 1384 | 7 | 7 | 100.0000 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.7513 | 99.9277 | 97.6023 | 62.0856 | 1382 | 1 | 1384 | 34 | 31 | 91.1765 | |
| gduggal-bwafb | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 97.2251 | 99.7837 | 94.7945 | 71.8473 | 1384 | 3 | 1384 | 76 | 5 | 6.5790 | |
| gduggal-bwaplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 84.3152 | 73.5419 | 98.7866 | 76.1775 | 1387 | 499 | 1384 | 17 | 13 | 76.4706 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5325 | 99.7837 | 99.2826 | 64.9925 | 1384 | 3 | 1384 | 10 | 0 | 0.0000 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6400 | 99.7837 | 99.4968 | 65.7726 | 1384 | 3 | 1384 | 7 | 0 | 0.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m2_e1 | * | 98.9616 | 98.9247 | 98.9986 | 84.3973 | 1380 | 15 | 1384 | 14 | 4 | 28.5714 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.5683 | 99.7837 | 99.3539 | 64.4733 | 1384 | 3 | 1384 | 9 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | * | map_l100_m0_e0 | * | 91.6436 | 88.3557 | 95.1857 | 96.6934 | 1381 | 182 | 1384 | 70 | 8 | 11.4286 | |
| ckim-dragen | INDEL | * | map_l150_m2_e1 | * | 96.1137 | 96.3169 | 95.9113 | 91.3208 | 1386 | 53 | 1384 | 59 | 11 | 18.6441 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.1404 | 98.4353 | 99.8557 | 31.3181 | 692 | 11 | 1384 | 2 | 1 | 50.0000 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.6761 | 99.8558 | 99.4971 | 65.7565 | 1385 | 2 | 1385 | 7 | 0 | 0.0000 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 98.9286 | 99.8558 | 98.0184 | 66.5562 | 1385 | 2 | 1385 | 28 | 1 | 3.5714 | |
| hfeng-pmm3 | INDEL | * | map_l125_m2_e1 | het | 98.2939 | 98.0824 | 98.5064 | 86.5724 | 1381 | 27 | 1385 | 21 | 3 | 14.2857 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.7479 | 99.8558 | 99.6403 | 66.1800 | 1385 | 2 | 1385 | 5 | 0 | 0.0000 | |
| ltrigg-rtg2 | INDEL | * | map_l150_m2_e1 | * | 97.5638 | 95.9694 | 99.2120 | 85.3515 | 1381 | 58 | 1385 | 11 | 1 | 9.0909 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 99.8558 | 99.8558 | 99.8558 | 64.1880 | 1385 | 2 | 1385 | 2 | 1 | 50.0000 | |
| dgrover-gatk | INDEL | * | map_l125_m2_e1 | het | 98.0504 | 98.0824 | 98.0184 | 89.8484 | 1381 | 27 | 1385 | 28 | 4 | 14.2857 | |
| dgrover-gatk | INDEL | * | map_l150_m2_e0 | * | 98.0504 | 98.0824 | 98.0184 | 91.3212 | 1381 | 27 | 1385 | 28 | 6 | 21.4286 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 83.2219 | 72.1186 | 98.3665 | 35.2346 | 1314 | 508 | 1385 | 23 | 22 | 95.6522 | |
| jmaeng-gatk | INDEL | * | map_l125_m2_e1 | het | 95.5179 | 98.1534 | 93.0201 | 92.7409 | 1382 | 26 | 1386 | 104 | 7 | 6.7308 | |
| jpowers-varprowl | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 98.9292 | 99.9277 | 97.9505 | 67.9429 | 1382 | 1 | 1386 | 29 | 18 | 62.0690 | |
| jlack-gatk | INDEL | * | map_l125_m2_e1 | het | 92.6447 | 98.1534 | 87.7215 | 91.9821 | 1382 | 26 | 1386 | 194 | 9 | 4.6392 | |
| jlack-gatk | INDEL | * | map_l150_m2_e0 | * | 93.7096 | 98.1534 | 89.6507 | 92.6142 | 1382 | 26 | 1386 | 160 | 9 | 5.6250 | |