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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
15901-15950 / 86044 show all | |||||||||||||||
| gduggal-snapvard | INDEL | I16_PLUS | map_l100_m1_e0 | het | 18.9474 | 11.1111 | 64.2857 | 75.6522 | 2 | 16 | 18 | 10 | 8 | 80.0000 | |
| gduggal-snapvard | INDEL | I16_PLUS | map_l100_m2_e0 | * | 13.7681 | 7.6923 | 65.5172 | 77.6923 | 2 | 24 | 19 | 10 | 8 | 80.0000 | |
| gduggal-snapvard | INDEL | I16_PLUS | map_l100_m2_e0 | het | 19.0000 | 11.1111 | 65.5172 | 77.3438 | 2 | 16 | 19 | 10 | 8 | 80.0000 | |
| gduggal-snapvard | INDEL | I16_PLUS | map_l100_m2_e1 | * | 13.7681 | 7.6923 | 65.5172 | 78.1955 | 2 | 24 | 19 | 10 | 8 | 80.0000 | |
| gduggal-snapvard | INDEL | I16_PLUS | map_l100_m2_e1 | het | 19.0000 | 11.1111 | 65.5172 | 77.8626 | 2 | 16 | 19 | 10 | 8 | 80.0000 | |
| ghariani-varprowl | INDEL | I6_15 | map_l100_m1_e0 | * | 72.3810 | 66.6667 | 79.1667 | 87.9093 | 76 | 38 | 76 | 20 | 16 | 80.0000 | |
| ghariani-varprowl | INDEL | I6_15 | map_l100_m2_e0 | * | 72.3005 | 66.3793 | 79.3814 | 88.9647 | 77 | 39 | 77 | 20 | 16 | 80.0000 | |
| ghariani-varprowl | INDEL | I6_15 | map_l100_m2_e1 | * | 72.3005 | 66.3793 | 79.3814 | 89.1134 | 77 | 39 | 77 | 20 | 16 | 80.0000 | |
| gduggal-snapfb | INDEL | D1_5 | HG002compoundhet | hetalt | 86.5070 | 78.1323 | 96.8926 | 76.7383 | 7982 | 2234 | 3274 | 105 | 84 | 80.0000 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 58.6032 | 44.0945 | 87.3418 | 56.5934 | 56 | 71 | 69 | 10 | 8 | 80.0000 | |
| gduggal-snapfb | INDEL | D6_15 | map_l100_m1_e0 | het | 81.8995 | 71.4286 | 95.9677 | 75.3968 | 90 | 36 | 119 | 5 | 4 | 80.0000 | |
| gduggal-snapfb | INDEL | D6_15 | map_l100_m2_e0 | het | 80.6053 | 69.4656 | 96.0000 | 76.1905 | 91 | 40 | 120 | 5 | 4 | 80.0000 | |
| gduggal-snapfb | INDEL | D6_15 | map_l100_m2_e1 | het | 79.7221 | 68.1481 | 96.0317 | 76.1815 | 92 | 43 | 121 | 5 | 4 | 80.0000 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 51.1073 | 48.0769 | 54.5455 | 60.7143 | 25 | 27 | 12 | 10 | 8 | 80.0000 | |
| gduggal-snapfb | INDEL | I6_15 | map_l100_m0_e0 | * | 77.4194 | 72.7273 | 82.7586 | 80.5369 | 24 | 9 | 24 | 5 | 4 | 80.0000 | |
| gduggal-snapfb | INDEL | I6_15 | map_l100_m1_e0 | het | 85.0531 | 79.6610 | 91.2281 | 72.1951 | 47 | 12 | 52 | 5 | 4 | 80.0000 | |
| gduggal-snapfb | INDEL | I6_15 | map_l100_m2_e0 | het | 84.5604 | 78.6885 | 91.3793 | 74.1071 | 48 | 13 | 53 | 5 | 4 | 80.0000 | |
| gduggal-snapfb | INDEL | I6_15 | map_l100_m2_e1 | het | 84.5604 | 78.6885 | 91.3793 | 74.8918 | 48 | 13 | 53 | 5 | 4 | 80.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | segdup | * | 80.9978 | 79.3103 | 82.7586 | 95.3226 | 46 | 12 | 48 | 10 | 8 | 80.0000 | |
| ghariani-varprowl | INDEL | D16_PLUS | segdup | het | 87.3006 | 97.2973 | 79.1667 | 95.5679 | 36 | 1 | 38 | 10 | 8 | 80.0000 | |
| ghariani-varprowl | INDEL | D1_5 | segdup | homalt | 94.4928 | 90.8078 | 98.4894 | 93.1837 | 326 | 33 | 326 | 5 | 4 | 80.0000 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | het | 68.5714 | 60.0000 | 80.0000 | 90.8425 | 21 | 14 | 20 | 5 | 4 | 80.0000 | |
| gduggal-snapfb | SNP | ti | map_l250_m1_e0 | homalt | 95.2567 | 91.2259 | 99.6601 | 92.2128 | 1466 | 141 | 1466 | 5 | 4 | 80.0000 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 55.8376 | 84.6154 | 41.6667 | 48.2759 | 11 | 2 | 25 | 35 | 28 | 80.0000 | |
| anovak-vg | INDEL | C1_5 | HG002compoundhet | homalt | 0.0000 | 0.0000 | 28.5714 | 81.0811 | 0 | 0 | 2 | 5 | 4 | 80.0000 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | het | 57.5634 | 52.4590 | 63.7681 | 43.4426 | 32 | 29 | 44 | 25 | 20 | 80.0000 | |
| anovak-vg | INDEL | D1_5 | map_l150_m0_e0 | homalt | 79.2389 | 69.4118 | 92.3077 | 92.5373 | 59 | 26 | 60 | 5 | 4 | 80.0000 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 10.9091 | 6.2500 | 42.8571 | 61.9565 | 12 | 180 | 15 | 20 | 16 | 80.0000 | |
| anovak-vg | INDEL | I16_PLUS | map_l125_m2_e0 | * | 26.0870 | 20.0000 | 37.5000 | 83.6735 | 3 | 12 | 3 | 5 | 4 | 80.0000 | |
| anovak-vg | INDEL | I16_PLUS | map_l125_m2_e0 | homalt | 30.7692 | 33.3333 | 28.5714 | 81.5789 | 1 | 2 | 2 | 5 | 4 | 80.0000 | |
| anovak-vg | INDEL | I16_PLUS | map_l125_m2_e1 | * | 26.0870 | 20.0000 | 37.5000 | 83.6735 | 3 | 12 | 3 | 5 | 4 | 80.0000 | |
| anovak-vg | INDEL | I16_PLUS | map_l125_m2_e1 | homalt | 30.7692 | 33.3333 | 28.5714 | 81.5789 | 1 | 2 | 2 | 5 | 4 | 80.0000 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.0423 | 85.9024 | 99.1274 | 31.9073 | 1109 | 182 | 1136 | 10 | 8 | 80.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.2177 | 95.4861 | 96.9605 | 77.6949 | 275 | 13 | 319 | 10 | 8 | 80.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 72.9300 | 58.6592 | 96.3768 | 29.2308 | 105 | 74 | 133 | 5 | 4 | 80.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 64.1221 | 77.7778 | 54.5455 | 85.3333 | 7 | 2 | 6 | 5 | 4 | 80.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 93.3929 | 89.2473 | 97.9424 | 67.1177 | 166 | 20 | 238 | 5 | 4 | 80.0000 | |
| asubramanian-gatk | SNP | tv | HG002complexvar | homalt | 97.9093 | 95.9142 | 99.9890 | 23.2773 | 91225 | 3886 | 91211 | 10 | 8 | 80.0000 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 99.6825 | 99.8940 | 99.4720 | 72.6656 | 1884 | 2 | 1884 | 10 | 8 | 80.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 92.7196 | 86.7545 | 99.5656 | 30.9538 | 1120 | 171 | 1146 | 5 | 4 | 80.0000 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 97.7416 | 96.3077 | 99.2188 | 22.9844 | 626 | 24 | 635 | 5 | 4 | 80.0000 | |
| astatham-gatk | SNP | * | map_l125_m1_e0 | homalt | 99.4624 | 99.0476 | 99.8807 | 63.5573 | 16744 | 161 | 16744 | 20 | 16 | 80.0000 | |
| astatham-gatk | SNP | * | map_l125_m2_e0 | homalt | 99.4712 | 99.0619 | 99.8839 | 66.1554 | 17212 | 163 | 17212 | 20 | 16 | 80.0000 | |
| astatham-gatk | SNP | * | map_l125_m2_e1 | homalt | 99.4760 | 99.0703 | 99.8850 | 66.1765 | 17369 | 163 | 17369 | 20 | 16 | 80.0000 | |
| astatham-gatk | SNP | tv | map_l250_m1_e0 | homalt | 98.5866 | 97.7804 | 99.4062 | 85.3845 | 837 | 19 | 837 | 5 | 4 | 80.0000 | |
| astatham-gatk | SNP | tv | map_l250_m2_e0 | homalt | 98.5460 | 97.6521 | 99.4565 | 86.4046 | 915 | 22 | 915 | 5 | 4 | 80.0000 | |
| astatham-gatk | SNP | tv | map_l250_m2_e1 | homalt | 98.5600 | 97.6744 | 99.4618 | 86.4833 | 924 | 22 | 924 | 5 | 4 | 80.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 91.4871 | 85.8770 | 97.8814 | 35.2538 | 377 | 62 | 462 | 10 | 8 | 80.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.5777 | 97.5610 | 95.6140 | 88.7352 | 160 | 4 | 109 | 5 | 4 | 80.0000 | |
| anovak-vg | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 39.9479 | 48.7805 | 33.8235 | 55.5556 | 40 | 42 | 69 | 135 | 108 | 80.0000 | |