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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
77551-77600 / 86044 show all | |||||||||||||||
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0327 | 99.8086 | 98.2688 | 63.7648 | 8344 | 16 | 8344 | 147 | 145 | 98.6395 | |
| ckim-vqsr | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0327 | 99.8086 | 98.2688 | 63.7648 | 8344 | 16 | 8344 | 147 | 145 | 98.6395 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.6375 | 98.9848 | 88.8383 | 60.2115 | 1170 | 12 | 1170 | 147 | 145 | 98.6395 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 59.0682 | 92.1182 | 43.4716 | 69.7982 | 561 | 48 | 566 | 736 | 726 | 98.6413 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 38.6951 | 60.3306 | 28.4813 | 61.2448 | 584 | 384 | 587 | 1474 | 1454 | 98.6431 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | * | 84.4279 | 81.5933 | 87.4666 | 33.3286 | 20023 | 4517 | 20601 | 2952 | 2912 | 98.6450 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 77.9999 | 89.7911 | 68.9460 | 55.2115 | 9974 | 1134 | 10002 | 4505 | 4444 | 98.6459 | |
| anovak-vg | SNP | ti | segdup | homalt | 98.8024 | 98.6009 | 99.0047 | 87.1313 | 7400 | 105 | 7361 | 74 | 73 | 98.6486 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 79.5312 | 73.0273 | 87.3070 | 53.3227 | 509 | 188 | 509 | 74 | 73 | 98.6486 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 88.7848 | 98.4043 | 80.8786 | 56.7114 | 185 | 3 | 313 | 74 | 73 | 98.6486 | |
| ghariani-varprowl | INDEL | I16_PLUS | HG002compoundhet | homalt | 7.5000 | 100.0000 | 3.8961 | 67.2340 | 3 | 0 | 3 | 74 | 73 | 98.6486 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 80.3731 | 72.7114 | 89.8397 | 50.0523 | 11668 | 4379 | 12441 | 1407 | 1388 | 98.6496 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 83.0571 | 91.0366 | 76.3636 | 59.1295 | 5322 | 524 | 5292 | 1638 | 1616 | 98.6569 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 83.0571 | 91.0366 | 76.3636 | 59.1295 | 5322 | 524 | 5292 | 1638 | 1616 | 98.6569 | |
| ltrigg-rtg2 | INDEL | * | HG002compoundhet | homalt | 87.5156 | 94.1691 | 81.7402 | 67.9371 | 646 | 40 | 667 | 149 | 147 | 98.6577 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.5626 | 98.9848 | 88.7036 | 60.4379 | 1170 | 12 | 1170 | 149 | 147 | 98.6577 | |
| eyeh-varpipe | INDEL | D1_5 | HG002compoundhet | * | 54.4680 | 50.0613 | 59.7255 | 65.1711 | 6125 | 6110 | 6092 | 4108 | 4053 | 98.6611 | |
| mlin-fermikit | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 83.3295 | 82.0722 | 84.6259 | 49.0103 | 31107 | 6795 | 30957 | 5624 | 5549 | 98.6664 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 50.0995 | 86.0000 | 35.3448 | 60.4096 | 43 | 7 | 41 | 75 | 74 | 98.6667 | |
| raldana-dualsentieon | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 91.5664 | 93.9498 | 89.3010 | 79.9025 | 823 | 53 | 626 | 75 | 74 | 98.6667 | |
| raldana-dualsentieon | INDEL | I1_5 | HG002compoundhet | het | 88.2507 | 86.4706 | 90.1055 | 86.0431 | 735 | 115 | 683 | 75 | 74 | 98.6667 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9522 | 99.9450 | 97.9790 | 62.3287 | 3636 | 2 | 3636 | 75 | 74 | 98.6667 | |
| hfeng-pmm2 | INDEL | I1_5 | HG002compoundhet | * | 96.1838 | 94.3347 | 98.1069 | 65.2150 | 11656 | 700 | 11660 | 225 | 222 | 98.6667 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 97.5125 | 95.6457 | 99.4536 | 45.9819 | 13421 | 611 | 13651 | 75 | 74 | 98.6667 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 51.5638 | 41.4948 | 68.0851 | 72.2550 | 161 | 227 | 160 | 75 | 74 | 98.6667 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.9522 | 99.9450 | 97.9790 | 62.2367 | 3636 | 2 | 3636 | 75 | 74 | 98.6667 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 72.3612 | 91.8919 | 59.6774 | 74.1667 | 136 | 12 | 111 | 75 | 74 | 98.6667 | |
| ghariani-varprowl | INDEL | I16_PLUS | * | homalt | 77.5054 | 66.3037 | 93.2615 | 54.3852 | 1035 | 526 | 1038 | 75 | 74 | 98.6667 | |
| hfeng-pmm2 | INDEL | I6_15 | * | homalt | 98.0364 | 99.6314 | 96.4918 | 51.1007 | 6216 | 23 | 6216 | 226 | 223 | 98.6726 | |
| dgrover-gatk | INDEL | D1_5 | * | homalt | 99.8204 | 99.9489 | 99.6922 | 62.5668 | 48901 | 25 | 48906 | 151 | 149 | 98.6755 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.4878 | 98.9848 | 88.5693 | 60.4017 | 1170 | 12 | 1170 | 151 | 149 | 98.6755 | |
| jpowers-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 53.1925 | 58.9431 | 48.4642 | 77.5994 | 145 | 101 | 142 | 151 | 149 | 98.6755 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 96.6367 | 99.6517 | 93.7987 | 63.9277 | 11444 | 40 | 11435 | 756 | 746 | 98.6772 | |
| raldana-dualsentieon | INDEL | I16_PLUS | HG002compoundhet | homalt | 7.3171 | 100.0000 | 3.7975 | 66.5254 | 3 | 0 | 3 | 76 | 75 | 98.6842 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.2373 | 98.5618 | 88.4586 | 59.3016 | 1165 | 17 | 1165 | 152 | 150 | 98.6842 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 95.4697 | 91.8338 | 99.4055 | 29.1133 | 12640 | 1124 | 12707 | 76 | 75 | 98.6842 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 95.4203 | 91.7332 | 99.4161 | 31.9693 | 12872 | 1160 | 12941 | 76 | 75 | 98.6842 | |
| ghariani-varprowl | INDEL | D6_15 | * | het | 73.5164 | 97.8175 | 58.8869 | 57.8444 | 11339 | 253 | 11364 | 7934 | 7830 | 98.6892 | |
| jmaeng-gatk | INDEL | I6_15 | * | homalt | 97.4945 | 99.7916 | 95.3008 | 55.3726 | 6226 | 13 | 6226 | 307 | 303 | 98.6971 | |
| mlin-fermikit | INDEL | I1_5 | HG002compoundhet | homalt | 49.1644 | 93.9210 | 33.2972 | 76.0021 | 309 | 20 | 307 | 615 | 607 | 98.6992 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 78.9679 | 72.4534 | 86.7698 | 52.5285 | 505 | 192 | 505 | 77 | 76 | 98.7013 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 84.7659 | 96.9199 | 75.3205 | 52.5114 | 472 | 15 | 470 | 154 | 152 | 98.7013 | |
| gduggal-bwafb | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 80.9161 | 72.4451 | 91.6304 | 55.0342 | 957 | 364 | 843 | 77 | 76 | 98.7013 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 93.7402 | 99.5017 | 88.6095 | 52.7933 | 599 | 3 | 599 | 77 | 76 | 98.7013 | |
| ltrigg-rtg1 | INDEL | * | HG002compoundhet | hetalt | 95.2514 | 91.2113 | 99.6659 | 56.7239 | 22967 | 2213 | 22971 | 77 | 76 | 98.7013 | |
| eyeh-varpipe | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 89.7154 | 88.6381 | 90.8193 | 44.6755 | 5968 | 765 | 9932 | 1004 | 991 | 98.7052 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 83.9007 | 77.8470 | 90.9754 | 41.3740 | 8627 | 2455 | 9355 | 928 | 916 | 98.7069 | |
| eyeh-varpipe | INDEL | D1_5 | HG002complexvar | homalt | 96.8706 | 98.8677 | 94.9525 | 54.3549 | 10478 | 120 | 10196 | 542 | 535 | 98.7085 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 36.8301 | 26.7943 | 58.8859 | 77.4791 | 224 | 612 | 222 | 155 | 153 | 98.7097 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 93.2109 | 98.7310 | 88.2753 | 60.4783 | 1167 | 15 | 1167 | 155 | 153 | 98.7097 | |