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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
1851-1900 / 86044 show all | |||||||||||||||
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 52.0287 | 92.5996 | 36.1780 | 66.6261 | 488 | 39 | 496 | 875 | 863 | 98.6286 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 47.8556 | 54.0432 | 42.9393 | 43.9068 | 675 | 574 | 672 | 893 | 863 | 96.6405 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 47.8556 | 54.0432 | 42.9393 | 43.9068 | 675 | 574 | 672 | 893 | 863 | 96.6405 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.3740 | 96.2418 | 98.5331 | 64.4408 | 62895 | 2456 | 62671 | 933 | 862 | 92.3901 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.3740 | 96.2418 | 98.5331 | 64.4408 | 62895 | 2456 | 62671 | 933 | 862 | 92.3901 | |
| eyeh-varpipe | INDEL | D6_15 | * | het | 91.9882 | 92.1325 | 91.8444 | 46.7075 | 10680 | 912 | 10079 | 895 | 860 | 96.0894 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 86.5531 | 82.3858 | 91.1644 | 45.8288 | 12984 | 2776 | 21554 | 2089 | 859 | 41.1202 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 93.5003 | 97.0335 | 90.2153 | 59.9508 | 8112 | 248 | 8086 | 877 | 859 | 97.9475 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 93.5003 | 97.0335 | 90.2153 | 59.9508 | 8112 | 248 | 8086 | 877 | 859 | 97.9475 | |
| egarrison-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 94.5094 | 94.1647 | 94.8565 | 75.2918 | 18703 | 1159 | 18774 | 1018 | 858 | 84.2829 | |
| ghariani-varprowl | INDEL | * | HG002complexvar | homalt | 94.5817 | 93.8099 | 95.3663 | 48.0723 | 25354 | 1673 | 25253 | 1227 | 858 | 69.9267 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 88.5672 | 91.1998 | 86.0824 | 76.7383 | 17856 | 1723 | 18339 | 2965 | 857 | 28.9039 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 88.5672 | 91.1998 | 86.0824 | 76.7383 | 17856 | 1723 | 18339 | 2965 | 857 | 28.9039 | |
| qzeng-custom | INDEL | D1_5 | HG002compoundhet | * | 88.1713 | 85.4271 | 91.0977 | 64.3947 | 10452 | 1783 | 11502 | 1124 | 856 | 76.1566 | |
| dgrover-gatk | INDEL | * | HG002compoundhet | homalt | 61.4004 | 99.7085 | 44.3580 | 85.1072 | 684 | 2 | 684 | 858 | 856 | 99.7669 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 60.2687 | 57.5149 | 63.2995 | 49.8576 | 2120 | 1566 | 2118 | 1228 | 856 | 69.7068 | |
| gduggal-snapplat | SNP | ti | map_siren | * | 97.1306 | 96.0829 | 98.2013 | 65.7243 | 96424 | 3931 | 96473 | 1767 | 855 | 48.3871 | |
| qzeng-custom | INDEL | I1_5 | * | het | 98.4046 | 98.3920 | 98.4173 | 59.0408 | 77770 | 1271 | 82639 | 1329 | 852 | 64.1084 | |
| gduggal-snapplat | INDEL | I1_5 | HG002compoundhet | * | 48.1810 | 42.2143 | 56.1120 | 77.8637 | 5216 | 7140 | 5412 | 4233 | 851 | 20.1039 | |
| gduggal-snapvard | INDEL | I16_PLUS | * | het | 3.9257 | 2.0603 | 41.4818 | 51.0283 | 56 | 2662 | 1047 | 1477 | 850 | 57.5491 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.2824 | 98.0398 | 98.5261 | 67.2886 | 64070 | 1281 | 63840 | 955 | 849 | 88.9005 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.2824 | 98.0398 | 98.5261 | 67.2886 | 64070 | 1281 | 63840 | 955 | 849 | 88.9005 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 62.4926 | 91.1184 | 47.5533 | 63.3312 | 831 | 81 | 826 | 911 | 847 | 92.9748 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 92.2062 | 93.5907 | 90.8621 | 57.8426 | 10572 | 724 | 10550 | 1061 | 847 | 79.8303 | |
| ckim-isaac | SNP | * | HG002complexvar | * | 95.9550 | 92.3552 | 99.8467 | 16.9098 | 696714 | 57671 | 697067 | 1070 | 847 | 79.1589 | |
| anovak-vg | SNP | tv | map_l150_m2_e1 | * | 79.4082 | 86.0633 | 73.7085 | 80.2069 | 9899 | 1603 | 9888 | 3527 | 846 | 23.9864 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 34.1360 | 27.5399 | 44.8870 | 36.7812 | 759 | 1997 | 834 | 1024 | 846 | 82.6172 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 49.3741 | 54.9918 | 44.7978 | 36.5595 | 336 | 275 | 831 | 1024 | 846 | 82.6172 | |
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 72.4338 | 76.9090 | 68.4508 | 62.7083 | 2518 | 756 | 2788 | 1285 | 845 | 65.7588 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.0533 | 97.6374 | 98.4728 | 67.8136 | 63807 | 1544 | 63576 | 986 | 844 | 85.5984 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.0533 | 97.6374 | 98.4728 | 67.8136 | 63807 | 1544 | 63576 | 986 | 844 | 85.5984 | |
| mlin-fermikit | SNP | tv | map_l150_m1_e0 | * | 56.0020 | 42.3295 | 82.7209 | 62.1223 | 4619 | 6293 | 4615 | 964 | 841 | 87.2407 | |
| mlin-fermikit | SNP | tv | map_l150_m1_e0 | homalt | 59.5283 | 52.1287 | 69.3761 | 55.9108 | 2057 | 1889 | 2057 | 908 | 841 | 92.6211 | |
| anovak-vg | INDEL | D1_5 | HG002complexvar | homalt | 92.9611 | 95.2727 | 90.7590 | 57.9711 | 10097 | 501 | 10224 | 1041 | 840 | 80.6916 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 94.7408 | 91.6287 | 98.0717 | 68.7918 | 14273 | 1304 | 54062 | 1063 | 839 | 78.9276 | |
| gduggal-bwaplat | INDEL | * | * | het | 92.4727 | 86.8430 | 98.8829 | 67.5454 | 168591 | 25542 | 168540 | 1904 | 839 | 44.0651 | |
| anovak-vg | SNP | tv | map_l150_m2_e0 | * | 79.2839 | 86.0062 | 73.5363 | 80.1925 | 9766 | 1589 | 9759 | 3512 | 838 | 23.8610 | |
| egarrison-hhga | INDEL | * | * | homalt | 98.9696 | 99.0301 | 98.9091 | 55.3233 | 123958 | 1214 | 123939 | 1367 | 838 | 61.3021 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.0302 | 97.5303 | 98.5353 | 67.8515 | 63737 | 1614 | 63506 | 944 | 836 | 88.5593 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.0302 | 97.5303 | 98.5353 | 67.8515 | 63737 | 1614 | 63506 | 944 | 836 | 88.5593 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 92.6329 | 89.7120 | 95.7505 | 61.0009 | 14423 | 1654 | 21721 | 964 | 836 | 86.7220 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 92.6329 | 89.7120 | 95.7505 | 61.0009 | 14423 | 1654 | 21721 | 964 | 836 | 86.7220 | |
| mlin-fermikit | INDEL | D1_5 | HG002complexvar | * | 96.3667 | 95.5494 | 97.1980 | 54.2316 | 31259 | 1456 | 31081 | 896 | 836 | 93.3036 | |
| anovak-vg | INDEL | D1_5 | HG002complexvar | het | 92.0015 | 90.8693 | 93.1622 | 52.9821 | 18869 | 1896 | 19565 | 1436 | 834 | 58.0780 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 31.1683 | 21.1733 | 59.0373 | 57.3384 | 1256 | 4676 | 1251 | 868 | 834 | 96.0829 | |
| gduggal-bwaplat | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 85.3226 | 75.6324 | 97.8608 | 79.5261 | 71434 | 23015 | 71409 | 1561 | 832 | 53.2992 | |
| gduggal-snapvard | INDEL | D6_15 | HG002complexvar | het | 73.6293 | 75.8333 | 71.5498 | 53.1509 | 2366 | 754 | 2867 | 1140 | 832 | 72.9825 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 34.5930 | 24.0897 | 61.3362 | 63.5277 | 1429 | 4503 | 1423 | 897 | 832 | 92.7536 | |
| gduggal-snapplat | SNP | ti | map_siren | het | 96.8090 | 96.4253 | 97.1959 | 70.5211 | 60152 | 2230 | 60242 | 1738 | 830 | 47.7560 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.3188 | 98.0964 | 98.5422 | 67.5554 | 64107 | 1244 | 63878 | 945 | 830 | 87.8307 | |