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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
18301-18350 / 86044 show all | |||||||||||||||
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | het | 28.5714 | 75.0000 | 17.6471 | 59.5238 | 6 | 2 | 6 | 28 | 28 | 100.0000 | |
| jli-custom | INDEL | D16_PLUS | HG002complexvar | * | 96.9398 | 95.6786 | 98.2346 | 63.8971 | 1572 | 71 | 1558 | 28 | 21 | 75.0000 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 98.0672 | 96.6017 | 99.5778 | 24.0929 | 6595 | 232 | 6604 | 28 | 27 | 96.4286 | |
| 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 | |
| jli-custom | INDEL | I6_15 | HG002complexvar | * | 98.1083 | 96.8489 | 99.4008 | 55.2909 | 4641 | 151 | 4645 | 28 | 23 | 82.1429 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.7868 | 99.6845 | 99.8894 | 55.8752 | 25279 | 80 | 25282 | 28 | 15 | 53.5714 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.4855 | 93.5742 | 99.5838 | 26.7211 | 6655 | 457 | 6699 | 28 | 28 | 100.0000 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.4722 | 93.5461 | 99.5872 | 27.3535 | 6711 | 463 | 6755 | 28 | 28 | 100.0000 | |
| jmaeng-gatk | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.2295 | 95.0044 | 97.4865 | 79.8699 | 1084 | 57 | 1086 | 28 | 18 | 64.2857 | |
| jmaeng-gatk | INDEL | I1_5 | map_l125_m2_e0 | * | 97.6916 | 98.5998 | 96.8000 | 90.6836 | 845 | 12 | 847 | 28 | 3 | 10.7143 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 93.7778 | 100.0000 | 88.2845 | 69.8232 | 211 | 0 | 211 | 28 | 27 | 96.4286 | |
| anovak-vg | INDEL | D1_5 | map_l100_m1_e0 | homalt | 89.7866 | 85.3041 | 94.7664 | 81.8274 | 505 | 87 | 507 | 28 | 27 | 96.4286 | |
| astatham-gatk | SNP | ti | map_l150_m0_e0 | het | 89.8677 | 82.0483 | 99.3346 | 85.7819 | 4182 | 915 | 4180 | 28 | 9 | 32.1429 | |
| astatham-gatk | SNP | ti | segdup | het | 98.8338 | 97.9219 | 99.7628 | 90.8470 | 11780 | 250 | 11778 | 28 | 2 | 7.1429 | |
| asubramanian-gatk | INDEL | * | segdup | * | 98.4487 | 98.0047 | 98.8968 | 98.3850 | 2505 | 51 | 2510 | 28 | 10 | 35.7143 | |
| asubramanian-gatk | INDEL | C16_PLUS | HG002complexvar | het | 0.0000 | 0.0000 | 75.6522 | 0 | 0 | 0 | 28 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C16_PLUS | HG002compoundhet | * | 0.0000 | 0.0000 | 48.1481 | 0 | 0 | 0 | 28 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 84.0000 | 0 | 0 | 0 | 28 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 0.0000 | 0.0000 | 83.2335 | 0 | 0 | 0 | 28 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.8022 | 98.1618 | 97.4453 | 67.6027 | 1068 | 20 | 1068 | 28 | 24 | 85.7143 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 96.7778 | 99.6205 | 94.0928 | 82.7887 | 525 | 2 | 446 | 28 | 25 | 89.2857 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 97.1826 | 99.5074 | 94.9640 | 83.8841 | 606 | 3 | 528 | 28 | 21 | 75.0000 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m1_e0 | het | 96.0534 | 94.5409 | 97.6150 | 85.1242 | 1143 | 66 | 1146 | 28 | 4 | 14.2857 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m2_e0 | het | 96.0772 | 94.5064 | 97.7011 | 85.6419 | 1187 | 69 | 1190 | 28 | 4 | 14.2857 | |
| astatham-gatk | INDEL | D1_5 | map_l100_m2_e1 | het | 95.9899 | 94.3218 | 97.7180 | 85.7871 | 1196 | 72 | 1199 | 28 | 4 | 14.2857 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 97.6772 | 96.0184 | 99.3942 | 25.6555 | 4582 | 190 | 4594 | 28 | 27 | 96.4286 | |
| astatham-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.2686 | 98.7673 | 95.8146 | 68.2034 | 641 | 8 | 641 | 28 | 28 | 100.0000 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.3915 | 95.8068 | 99.0295 | 51.2175 | 2856 | 125 | 2857 | 28 | 23 | 82.1429 | |
| astatham-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.6923 | 100.0000 | 91.7404 | 70.3412 | 311 | 0 | 311 | 28 | 27 | 96.4286 | |
| bgallagher-sentieon | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.7691 | 99.9184 | 99.6202 | 33.3544 | 7349 | 6 | 7345 | 28 | 3 | 10.7143 | |
| bgallagher-sentieon | SNP | tv | HG002compoundhet | * | 99.7142 | 99.7422 | 99.6862 | 48.7920 | 8900 | 23 | 8895 | 28 | 11 | 39.2857 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.1539 | 96.1783 | 98.1494 | 73.9632 | 1208 | 48 | 1485 | 28 | 21 | 75.0000 | |
| bgallagher-sentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 96.6882 | 99.4307 | 94.0928 | 82.7133 | 524 | 3 | 446 | 28 | 28 | 100.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.3117 | 93.2057 | 99.6319 | 25.1721 | 7545 | 550 | 7579 | 28 | 28 | 100.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3362 | 98.9137 | 99.7624 | 51.3621 | 11746 | 129 | 11756 | 28 | 14 | 50.0000 | |
| asubramanian-gatk | INDEL | D1_5 | map_l150_m0_e0 | het | 88.8889 | 91.0891 | 86.7925 | 93.8746 | 184 | 18 | 184 | 28 | 1 | 3.5714 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 95.7443 | 92.7854 | 98.8981 | 31.4540 | 2032 | 158 | 2513 | 28 | 26 | 92.8571 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.3297 | 98.9174 | 99.7455 | 57.3296 | 10964 | 120 | 10972 | 28 | 3 | 10.7143 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.7738 | 97.6852 | 97.8626 | 87.3723 | 1266 | 30 | 1282 | 28 | 7 | 25.0000 | |
| anovak-vg | INDEL | I1_5 | func_cds | homalt | 87.3563 | 95.7983 | 80.2817 | 31.0680 | 114 | 5 | 114 | 28 | 26 | 92.8571 | |
| anovak-vg | SNP | * | map_l150_m0_e0 | homalt | 84.1702 | 73.1719 | 99.0595 | 77.5693 | 2992 | 1097 | 2949 | 28 | 25 | 89.2857 | |
| astatham-gatk | INDEL | * | segdup | het | 98.4019 | 98.7040 | 98.1017 | 95.1947 | 1447 | 19 | 1447 | 28 | 2 | 7.1429 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 94.5589 | 96.3636 | 92.8205 | 77.9037 | 371 | 14 | 362 | 28 | 18 | 64.2857 | |
| rpoplin-dv42 | SNP | * | segdup | homalt | 99.8140 | 99.8883 | 99.7398 | 89.1939 | 10731 | 12 | 10731 | 28 | 28 | 100.0000 | |
| rpoplin-dv42 | SNP | ti | HG002compoundhet | het | 99.5469 | 99.3898 | 99.7044 | 38.8720 | 9447 | 58 | 9445 | 28 | 22 | 78.5714 | |
| rpoplin-dv42 | SNP | ti | segdup | het | 99.7339 | 99.7007 | 99.7671 | 89.8249 | 11994 | 36 | 11992 | 28 | 3 | 10.7143 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.9010 | 100.0000 | 95.8884 | 72.2268 | 653 | 0 | 653 | 28 | 27 | 96.4286 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 93.5412 | 99.5261 | 88.2353 | 68.7254 | 210 | 1 | 210 | 28 | 27 | 96.4286 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.3872 | 99.0063 | 99.7710 | 48.5556 | 11757 | 118 | 11762 | 27 | 17 | 62.9630 | |
| raldana-dualsentieon | INDEL | I1_5 | HG002complexvar | homalt | 99.8477 | 99.8959 | 99.7995 | 52.5914 | 13434 | 14 | 13438 | 27 | 27 | 100.0000 | |