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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
58501-58550 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 94.8184 | 97.5347 | 92.2494 | 57.4247 | 633 | 16 | 1095 | 92 | 89 | 96.7391 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 97.2687 | 95.4802 | 99.1254 | 71.1036 | 338 | 16 | 340 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.0574 | 96.7213 | 97.3958 | 75.1053 | 472 | 16 | 748 | 20 | 14 | 70.0000 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 94.6459 | 92.4171 | 96.9849 | 47.4934 | 195 | 16 | 193 | 6 | 0 | 0.0000 | |
| anovak-vg | INDEL | D6_15 | map_l100_m1_e0 | homalt | 82.8729 | 75.0000 | 92.5926 | 84.7025 | 48 | 16 | 50 | 4 | 4 | 100.0000 | |
| anovak-vg | INDEL | D6_15 | map_l100_m2_e0 | homalt | 83.1614 | 75.3846 | 92.7273 | 85.4111 | 49 | 16 | 51 | 4 | 4 | 100.0000 | |
| astatham-gatk | INDEL | D1_5 | map_l125_m0_e0 | het | 95.3690 | 95.3623 | 95.3757 | 89.7329 | 329 | 16 | 330 | 16 | 1 | 6.2500 | |
| astatham-gatk | INDEL | D6_15 | map_siren | * | 97.2363 | 96.8566 | 97.6190 | 85.4503 | 493 | 16 | 492 | 12 | 2 | 16.6667 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.6042 | 99.3980 | 99.8112 | 69.7820 | 2642 | 16 | 2643 | 5 | 3 | 60.0000 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.5649 | 94.0520 | 99.2157 | 76.9231 | 253 | 16 | 253 | 2 | 1 | 50.0000 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.2405 | 95.8549 | 98.6667 | 91.1368 | 370 | 16 | 370 | 5 | 3 | 60.0000 | |
| astatham-gatk | SNP | ti | segdup | homalt | 99.8666 | 99.7868 | 99.9466 | 87.4281 | 7489 | 16 | 7489 | 4 | 4 | 100.0000 | |
| asubramanian-gatk | INDEL | * | map_l250_m2_e0 | homalt | 92.0930 | 86.0870 | 99.0000 | 95.9920 | 99 | 16 | 99 | 1 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | * | map_l250_m2_e1 | homalt | 92.1659 | 86.2069 | 99.0099 | 96.0531 | 100 | 16 | 100 | 1 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 95.8376 | 96.7213 | 94.9698 | 72.2501 | 472 | 16 | 472 | 25 | 21 | 84.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 95.5262 | 96.9639 | 94.1304 | 83.3091 | 511 | 16 | 433 | 27 | 27 | 100.0000 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 60.8555 | 82.6087 | 48.1707 | 53.0086 | 76 | 16 | 79 | 85 | 74 | 87.0588 | |
| anovak-vg | INDEL | I6_15 | map_l125_m1_e0 | het | 53.8462 | 46.6667 | 63.6364 | 86.1925 | 14 | 16 | 21 | 12 | 2 | 16.6667 | |
| anovak-vg | INDEL | I6_15 | map_l125_m2_e0 | het | 53.8462 | 46.6667 | 63.6364 | 87.4046 | 14 | 16 | 21 | 12 | 2 | 16.6667 | |
| anovak-vg | INDEL | I6_15 | map_l125_m2_e1 | het | 53.8462 | 46.6667 | 63.6364 | 87.6866 | 14 | 16 | 21 | 12 | 2 | 16.6667 | |
| anovak-vg | SNP | ti | map_l125_m1_e0 | hetalt | 0.0000 | 33.3333 | 0.0000 | 0.0000 | 8 | 16 | 0 | 0 | 0 | ||
| anovak-vg | SNP | ti | map_l125_m2_e0 | hetalt | 0.0000 | 33.3333 | 0.0000 | 0.0000 | 8 | 16 | 0 | 0 | 0 | ||
| anovak-vg | SNP | ti | map_l125_m2_e1 | hetalt | 0.0000 | 33.3333 | 0.0000 | 0.0000 | 8 | 16 | 0 | 0 | 0 | ||
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 98.2046 | 97.0093 | 99.4297 | 73.5811 | 519 | 16 | 523 | 3 | 3 | 100.0000 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.6989 | 99.5626 | 99.8355 | 53.1956 | 3642 | 16 | 3641 | 6 | 1 | 16.6667 | |
| anovak-vg | INDEL | I6_15 | func_cds | * | 63.7892 | 60.4651 | 67.5000 | 37.5000 | 26 | 17 | 27 | 13 | 10 | 76.9231 | |
| anovak-vg | SNP | * | tech_badpromoters | het | 84.5070 | 77.9221 | 92.3077 | 45.8333 | 60 | 17 | 60 | 5 | 5 | 100.0000 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.1662 | 96.4657 | 97.8769 | 49.3548 | 464 | 17 | 461 | 10 | 8 | 80.0000 | |
| astatham-gatk | INDEL | * | map_l150_m0_e0 | het | 95.0292 | 95.0147 | 95.0437 | 93.4915 | 324 | 17 | 326 | 17 | 1 | 5.8824 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.2196 | 98.8975 | 99.5437 | 78.3395 | 1525 | 17 | 1527 | 7 | 4 | 57.1429 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.6923 | 95.5844 | 97.8261 | 79.5669 | 368 | 17 | 360 | 8 | 7 | 87.5000 | |
| asubramanian-gatk | INDEL | D1_5 | map_l250_m2_e1 | het | 84.3373 | 86.0656 | 82.6772 | 96.9962 | 105 | 17 | 105 | 22 | 2 | 9.0909 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.3450 | 94.8485 | 95.8466 | 76.3952 | 313 | 17 | 300 | 13 | 7 | 53.8462 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.3908 | 99.0173 | 99.7672 | 36.4175 | 1713 | 17 | 1714 | 4 | 4 | 100.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.2940 | 95.6186 | 99.0291 | 76.0326 | 371 | 17 | 408 | 4 | 3 | 75.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.8691 | 93.6803 | 98.1627 | 71.5034 | 252 | 17 | 374 | 7 | 6 | 85.7143 | |
| asubramanian-gatk | INDEL | I1_5 | map_l150_m0_e0 | het | 87.2549 | 83.9623 | 90.8163 | 95.3356 | 89 | 17 | 89 | 9 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | I1_5 | map_l250_m1_e0 | * | 88.1188 | 83.9623 | 92.7083 | 97.0525 | 89 | 17 | 89 | 7 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.3658 | 98.8087 | 99.9291 | 27.0801 | 1410 | 17 | 1410 | 1 | 1 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l100_m2_e0 | * | 98.8043 | 99.1123 | 98.4982 | 84.6307 | 1898 | 17 | 1902 | 29 | 6 | 20.6897 | |
| bgallagher-sentieon | INDEL | D1_5 | map_l100_m2_e1 | * | 98.8190 | 99.1233 | 98.5166 | 84.7206 | 1922 | 17 | 1926 | 29 | 6 | 20.6897 | |
| bgallagher-sentieon | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.6516 | 99.8513 | 97.4804 | 41.9937 | 11416 | 17 | 11413 | 295 | 2 | 0.6780 | |
| bgallagher-sentieon | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.4759 | 99.4255 | 99.5264 | 47.7277 | 2942 | 17 | 2942 | 14 | 0 | 0.0000 | |
| bgallagher-sentieon | SNP | ti | segdup | het | 99.2686 | 99.8587 | 98.6854 | 90.5804 | 12013 | 17 | 12011 | 160 | 2 | 1.2500 | |
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 86.3345 | 95.2646 | 78.9352 | 39.3258 | 342 | 17 | 341 | 91 | 89 | 97.8022 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7288 | 99.5616 | 99.8965 | 59.3927 | 3861 | 17 | 3861 | 4 | 0 | 0.0000 | |
| astatham-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.9336 | 98.0047 | 99.8804 | 84.7751 | 835 | 17 | 835 | 1 | 1 | 100.0000 | |
| astatham-gatk | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.9009 | 99.8317 | 99.9703 | 49.2989 | 10085 | 17 | 10085 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | * | map_siren | hetalt | 96.0386 | 93.1174 | 99.1489 | 87.5133 | 230 | 17 | 233 | 2 | 0 | 0.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.5348 | 97.9369 | 99.1400 | 71.5584 | 807 | 17 | 807 | 7 | 3 | 42.8571 | |