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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
1901-1950 / 86044 show all | |||||||||||||||
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.3188 | 98.0964 | 98.5422 | 67.5554 | 64107 | 1244 | 63878 | 945 | 830 | 87.8307 | |
| gduggal-snapfb | INDEL | * | * | hetalt | 71.6867 | 64.3698 | 80.8803 | 78.7792 | 16245 | 8992 | 5770 | 1364 | 830 | 60.8504 | |
| gduggal-snapfb | INDEL | * | HG002complexvar | homalt | 93.4910 | 91.9932 | 95.0384 | 54.0929 | 24863 | 2164 | 24901 | 1300 | 829 | 63.7692 | |
| ckim-isaac | INDEL | D1_5 | HG002compoundhet | * | 88.8135 | 85.9501 | 91.8743 | 43.5269 | 10516 | 1719 | 10436 | 923 | 829 | 89.8158 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 92.5242 | 92.9345 | 92.1175 | 55.9701 | 12785 | 972 | 12446 | 1065 | 828 | 77.7465 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 92.5242 | 92.9345 | 92.1175 | 55.9701 | 12785 | 972 | 12446 | 1065 | 828 | 77.7465 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 32.9929 | 22.6568 | 60.6716 | 52.9029 | 1344 | 4588 | 1319 | 855 | 827 | 96.7251 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 70.2185 | 89.1892 | 57.9025 | 52.1104 | 1188 | 144 | 1176 | 855 | 827 | 96.7251 | |
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 39.0307 | 30.0166 | 55.7823 | 32.5275 | 181 | 422 | 1230 | 975 | 826 | 84.7179 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 93.5431 | 94.7785 | 92.3395 | 52.9259 | 10528 | 580 | 10511 | 872 | 826 | 94.7248 | |
| gduggal-bwafb | INDEL | I1_5 | HG002compoundhet | * | 88.8259 | 85.0923 | 92.9023 | 63.5931 | 10514 | 1842 | 11309 | 864 | 824 | 95.3704 | |
| anovak-vg | SNP | tv | map_l150_m2_e1 | het | 76.1119 | 90.7050 | 65.5638 | 81.6339 | 6665 | 683 | 6658 | 3497 | 823 | 23.5345 | |
| qzeng-custom | INDEL | I1_5 | HG002compoundhet | * | 82.4804 | 75.6151 | 90.7168 | 64.6037 | 9343 | 3013 | 9391 | 961 | 822 | 85.5359 | |
| eyeh-varpipe | INDEL | D16_PLUS | HG002compoundhet | homalt | 0.4762 | 12.5000 | 0.2427 | 19.8444 | 1 | 7 | 2 | 822 | 821 | 99.8783 | |
| gduggal-snapfb | SNP | ti | HG002complexvar | * | 99.2700 | 99.6259 | 98.9167 | 19.8956 | 506535 | 1902 | 507043 | 5553 | 819 | 14.7488 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 59.3370 | 47.9747 | 77.7515 | 66.6856 | 5697 | 6178 | 8230 | 2355 | 819 | 34.7771 | |
| qzeng-custom | SNP | * | * | het | 99.4239 | 99.1899 | 99.6590 | 25.4299 | 1858423 | 15178 | 1850061 | 6331 | 818 | 12.9205 | |
| mlin-fermikit | SNP | * | map_l150_m0_e0 | * | 47.5288 | 33.5688 | 81.3658 | 64.0159 | 4039 | 7993 | 4039 | 925 | 818 | 88.4324 | |
| mlin-fermikit | SNP | * | map_l150_m0_e0 | homalt | 52.6207 | 43.4581 | 66.6792 | 59.8524 | 1777 | 2312 | 1777 | 888 | 815 | 91.7793 | |
| anovak-vg | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | het | 43.8638 | 34.2213 | 61.0721 | 38.4199 | 167 | 321 | 1390 | 886 | 815 | 91.9865 | |
| anovak-vg | SNP | tv | map_l150_m2_e0 | het | 75.9484 | 90.6371 | 65.3567 | 81.6125 | 6573 | 679 | 6569 | 3482 | 815 | 23.4061 | |
| anovak-vg | INDEL | D16_PLUS | * | * | 64.9199 | 56.1321 | 76.9701 | 52.6377 | 3808 | 2976 | 3780 | 1131 | 815 | 72.0601 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 96.8145 | 96.7836 | 96.8455 | 61.4159 | 32167 | 1069 | 31775 | 1035 | 815 | 78.7440 | |
| ndellapenna-hhga | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 94.5490 | 94.0187 | 95.0853 | 75.2577 | 18674 | 1188 | 18786 | 971 | 814 | 83.8311 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 97.5070 | 99.4936 | 95.5983 | 68.5706 | 18074 | 92 | 18048 | 831 | 814 | 97.9543 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 97.5070 | 99.4936 | 95.5983 | 68.5706 | 18074 | 92 | 18048 | 831 | 814 | 97.9543 | |
| eyeh-varpipe | INDEL | D16_PLUS | * | het | 74.8225 | 76.6382 | 73.0908 | 51.0116 | 2421 | 738 | 2230 | 821 | 811 | 98.7820 | |
| anovak-vg | INDEL | D6_15 | * | homalt | 75.9353 | 71.8780 | 80.4782 | 54.2097 | 4547 | 1779 | 4679 | 1135 | 811 | 71.4537 | |
| cchapple-custom | INDEL | * | * | homalt | 99.5578 | 99.7843 | 99.3323 | 55.6558 | 124902 | 270 | 124673 | 838 | 810 | 96.6587 | |
| rpoplin-dv42 | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.3954 | 97.0977 | 97.6949 | 62.0775 | 35530 | 1062 | 35516 | 838 | 810 | 96.6587 | |
| anovak-vg | SNP | tv | map_l150_m1_e0 | * | 79.0094 | 85.9421 | 73.1117 | 78.8881 | 9378 | 1534 | 9370 | 3446 | 807 | 23.4185 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 92.8220 | 96.7435 | 89.2061 | 36.1513 | 7011 | 236 | 7000 | 847 | 807 | 95.2774 | |
| jli-custom | INDEL | * | HG002compoundhet | * | 95.6209 | 94.1822 | 97.1042 | 61.3856 | 28217 | 1743 | 28100 | 838 | 804 | 95.9427 | |
| ckim-isaac | SNP | * | HG002compoundhet | * | 87.4314 | 80.5166 | 95.6453 | 38.0766 | 20791 | 5031 | 21327 | 971 | 803 | 82.6982 | |
| jpowers-varprowl | SNP | tv | HG002complexvar | * | 99.3235 | 99.1623 | 99.4852 | 24.4097 | 244090 | 2062 | 244285 | 1264 | 803 | 63.5285 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 52.7192 | 50.5474 | 55.0862 | 52.4074 | 1062 | 1039 | 991 | 808 | 803 | 99.3812 | |
| gduggal-snapfb | SNP | * | map_siren | * | 98.4685 | 98.6644 | 98.2733 | 60.5270 | 144275 | 1953 | 144278 | 2535 | 801 | 31.5976 | |
| mlin-fermikit | INDEL | I1_5 | HG002complexvar | * | 96.3771 | 95.3032 | 97.4754 | 51.5661 | 31796 | 1567 | 31622 | 819 | 800 | 97.6801 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 78.4487 | 74.1077 | 83.3299 | 46.2271 | 1142 | 399 | 4044 | 809 | 800 | 98.8875 | |
| jpowers-varprowl | SNP | ti | HG002complexvar | * | 99.5182 | 99.3169 | 99.7203 | 18.7923 | 504961 | 3473 | 505119 | 1417 | 799 | 56.3867 | |
| hfeng-pmm3 | INDEL | * | * | * | 99.3628 | 99.0161 | 99.7120 | 56.9384 | 341152 | 3390 | 341013 | 985 | 798 | 81.0152 | |
| ciseli-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 88.8947 | 97.3720 | 81.7754 | 63.9228 | 54169 | 1462 | 54352 | 12113 | 797 | 6.5797 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 87.4763 | 84.1506 | 91.0757 | 53.9857 | 5320 | 1002 | 9889 | 969 | 796 | 82.1465 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 87.4763 | 84.1506 | 91.0757 | 53.9857 | 5320 | 1002 | 9889 | 969 | 796 | 82.1465 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.4052 | 96.7970 | 98.0210 | 61.6169 | 41947 | 1388 | 41755 | 843 | 795 | 94.3060 | |
| jlack-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 96.8636 | 96.4960 | 97.2340 | 52.6642 | 30871 | 1121 | 30794 | 876 | 794 | 90.6393 | |
| ckim-isaac | INDEL | I1_5 | HG002compoundhet | * | 86.4991 | 81.9764 | 91.5499 | 51.1004 | 10129 | 2227 | 10130 | 935 | 794 | 84.9198 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 25.0146 | 16.3556 | 53.1570 | 69.3516 | 1034 | 5288 | 985 | 868 | 794 | 91.4747 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 25.0146 | 16.3556 | 53.1570 | 69.3516 | 1034 | 5288 | 985 | 868 | 794 | 91.4747 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 95.7997 | 94.0020 | 97.6675 | 65.5892 | 5736 | 366 | 36639 | 875 | 794 | 90.7429 | |