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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
7051-7100 / 86044 show all | |||||||||||||||
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 96.4687 | 96.5227 | 96.4148 | 36.9062 | 6995 | 252 | 6992 | 260 | 103 | 39.6154 | |
| dgrover-gatk | SNP | * | map_siren | * | 99.6607 | 99.6410 | 99.6805 | 56.6949 | 145703 | 525 | 145680 | 467 | 103 | 22.0557 | |
| dgrover-gatk | INDEL | D16_PLUS | * | * | 97.8781 | 98.0395 | 97.7172 | 70.6733 | 6651 | 133 | 6635 | 155 | 103 | 66.4516 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.2689 | 97.4195 | 97.1188 | 75.1529 | 4870 | 129 | 4854 | 144 | 103 | 71.5278 | |
| dgrover-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.2689 | 97.4195 | 97.1188 | 75.1529 | 4870 | 129 | 4854 | 144 | 103 | 71.5278 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.2986 | 93.6245 | 97.0336 | 62.2347 | 3730 | 254 | 3729 | 114 | 103 | 90.3509 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 83.6293 | 78.9187 | 88.9381 | 47.0175 | 3766 | 1006 | 1809 | 225 | 103 | 45.7778 | |
| gduggal-snapplat | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 83.4678 | 77.0663 | 91.0292 | 80.6522 | 13539 | 4029 | 13577 | 1338 | 103 | 7.6981 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 88.0685 | 85.1768 | 91.1634 | 69.1509 | 2264 | 394 | 2249 | 218 | 103 | 47.2477 | |
| gduggal-bwafb | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 91.3518 | 88.3601 | 94.5531 | 56.1456 | 1708 | 225 | 1788 | 103 | 103 | 100.0000 | |
| gduggal-bwafb | INDEL | I16_PLUS | * | het | 55.7818 | 39.5143 | 94.8163 | 37.5746 | 1074 | 1644 | 1884 | 103 | 103 | 100.0000 | |
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 87.7617 | 87.8607 | 87.6630 | 63.7323 | 883 | 122 | 874 | 123 | 103 | 83.7398 | |
| eyeh-varpipe | SNP | * | HG002complexvar | homalt | 99.9303 | 99.9127 | 99.9480 | 18.2871 | 288323 | 252 | 263218 | 137 | 103 | 75.1825 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 42.4890 | 35.9504 | 51.9347 | 63.3123 | 348 | 620 | 604 | 559 | 103 | 18.4258 | |
| gduggal-snapfb | INDEL | * | map_siren | * | 93.6644 | 92.0513 | 95.3350 | 81.9963 | 6821 | 589 | 6887 | 337 | 103 | 30.5638 | |
| gduggal-bwaplat | INDEL | I6_15 | * | homalt | 91.2395 | 85.5426 | 97.7493 | 57.4509 | 5337 | 902 | 5342 | 123 | 103 | 83.7398 | |
| ciseli-custom | INDEL | D1_5 | map_l100_m2_e1 | homalt | 83.7687 | 85.9677 | 81.6794 | 83.9066 | 533 | 87 | 535 | 120 | 103 | 85.8333 | |
| asubramanian-gatk | INDEL | D1_5 | HG002compoundhet | het | 95.2389 | 96.5856 | 93.9292 | 78.7201 | 1669 | 59 | 1671 | 108 | 103 | 95.3704 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 98.9716 | 99.4894 | 98.4590 | 36.7681 | 7210 | 37 | 7220 | 113 | 103 | 91.1504 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 35.1693 | 26.0417 | 54.1485 | 80.6424 | 125 | 355 | 124 | 105 | 103 | 98.0952 | |
| jpowers-varprowl | INDEL | I6_15 | HG002complexvar | homalt | 84.7204 | 80.4778 | 89.4353 | 51.1131 | 977 | 237 | 982 | 116 | 103 | 88.7931 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.6091 | 98.6593 | 98.5590 | 59.0674 | 7285 | 99 | 7250 | 106 | 103 | 97.1698 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 97.9872 | 99.1753 | 96.8273 | 68.0073 | 3247 | 27 | 3235 | 106 | 103 | 97.1698 | |
| ltrigg-rtg1 | SNP | tv | * | * | 99.8285 | 99.8863 | 99.7709 | 19.9654 | 968593 | 1103 | 968859 | 2225 | 103 | 4.6292 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.2270 | 94.3394 | 98.1917 | 57.1762 | 7933 | 476 | 7928 | 146 | 103 | 70.5479 | |
| qzeng-custom | INDEL | D1_5 | HG002complexvar | het | 98.6823 | 98.3530 | 99.0138 | 55.4973 | 20423 | 342 | 21686 | 216 | 103 | 47.6852 | |
| qzeng-custom | INDEL | D6_15 | HG002complexvar | het | 94.9295 | 96.7628 | 93.1643 | 54.7892 | 3019 | 101 | 4116 | 302 | 103 | 34.1060 | |
| mlin-fermikit | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.3740 | 98.0805 | 98.6692 | 39.1607 | 10526 | 206 | 10528 | 142 | 102 | 71.8310 | |
| eyeh-varpipe | INDEL | D6_15 | HG002complexvar | hetalt | 51.3277 | 35.9329 | 89.8020 | 58.8427 | 364 | 649 | 907 | 103 | 102 | 99.0291 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 67.4035 | 79.2818 | 58.6207 | 66.4093 | 287 | 75 | 153 | 108 | 102 | 94.4444 | |
| rpoplin-dv42 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.3952 | 94.2799 | 98.6075 | 61.7292 | 7928 | 481 | 7931 | 112 | 102 | 91.0714 | |
| rpoplin-dv42 | SNP | ti | map_l125_m2_e0 | * | 99.3062 | 99.1044 | 99.5088 | 70.7721 | 29987 | 271 | 29983 | 148 | 102 | 68.9189 | |
| rpoplin-dv42 | SNP | ti | map_l125_m2_e1 | * | 99.3100 | 99.1069 | 99.5138 | 70.8133 | 30296 | 273 | 30292 | 148 | 102 | 68.9189 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 28.8305 | 21.2560 | 44.7917 | 78.0069 | 88 | 326 | 86 | 106 | 102 | 96.2264 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 39.4120 | 30.0000 | 57.4297 | 83.9871 | 144 | 336 | 143 | 106 | 102 | 96.2264 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 85.7525 | 97.3468 | 76.6261 | 86.4563 | 4036 | 110 | 4088 | 1247 | 102 | 8.1796 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 87.7974 | 81.4329 | 95.2411 | 80.6685 | 7570 | 1726 | 3002 | 150 | 102 | 68.0000 | |
| gduggal-snapvard | INDEL | D1_5 | map_l125_m2_e0 | * | 88.0937 | 95.6255 | 81.6617 | 88.2856 | 1093 | 50 | 1376 | 309 | 102 | 33.0097 | |
| gduggal-snapvard | INDEL | D1_5 | map_l125_m2_e1 | * | 88.0989 | 95.5920 | 81.6951 | 88.4146 | 1106 | 51 | 1388 | 311 | 102 | 32.7974 | |
| gduggal-snapvard | SNP | * | map_l250_m2_e1 | * | 86.3822 | 95.4176 | 78.9099 | 91.6016 | 7621 | 366 | 7543 | 2016 | 102 | 5.0595 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 82.0117 | 91.2515 | 74.4710 | 86.1394 | 8334 | 799 | 8235 | 2823 | 102 | 3.6132 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 82.0117 | 91.2515 | 74.4710 | 86.1394 | 8334 | 799 | 8235 | 2823 | 102 | 3.6132 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 56.3564 | 39.9149 | 95.8304 | 60.8880 | 2719 | 4093 | 2735 | 119 | 102 | 85.7143 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 52.7132 | 36.3814 | 95.6522 | 52.4661 | 2610 | 4564 | 2618 | 119 | 102 | 85.7143 | |
| gduggal-snapvard | SNP | tv | map_l150_m2_e0 | * | 91.6223 | 96.6094 | 87.1248 | 82.6892 | 10970 | 385 | 10942 | 1617 | 102 | 6.3080 | |
| ltrigg-rtg1 | SNP | * | * | het | 99.8185 | 99.8570 | 99.7799 | 17.5567 | 1870919 | 2679 | 1871167 | 4127 | 102 | 2.4715 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 94.8204 | 92.5954 | 97.1549 | 61.9830 | 3689 | 295 | 3688 | 108 | 102 | 94.4444 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 92.4799 | 96.1498 | 89.0799 | 74.5628 | 924 | 37 | 881 | 108 | 102 | 94.4444 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 23.3857 | 16.6667 | 39.1813 | 74.7788 | 69 | 345 | 67 | 104 | 102 | 98.0769 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 17.7637 | 11.1244 | 44.0594 | 77.0193 | 93 | 743 | 89 | 113 | 102 | 90.2655 | |