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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
74601-74650 / 86044 show all | |||||||||||||||
| gduggal-snapfb | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.6120 | 99.6463 | 99.5777 | 54.2814 | 10142 | 36 | 10139 | 43 | 40 | 93.0233 | |
| ciseli-custom | INDEL | I16_PLUS | HG002compoundhet | homalt | 0.9434 | 33.3333 | 0.4785 | 52.5000 | 1 | 2 | 2 | 416 | 387 | 93.0288 | |
| jmaeng-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.1176 | 97.7691 | 98.4687 | 60.2554 | 15689 | 358 | 15690 | 244 | 227 | 93.0328 | |
| eyeh-varpipe | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 83.2366 | 80.6994 | 85.9386 | 73.3453 | 4131 | 988 | 5091 | 833 | 775 | 93.0372 | |
| jli-custom | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 95.0957 | 93.3062 | 96.9553 | 51.5459 | 3666 | 263 | 3662 | 115 | 107 | 93.0435 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 91.9391 | 95.7447 | 88.4244 | 72.2445 | 585 | 26 | 550 | 72 | 67 | 93.0556 | |
| rpoplin-dv42 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.3306 | 96.7640 | 97.9038 | 49.8941 | 21530 | 720 | 21531 | 461 | 429 | 93.0586 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.6849 | 97.2767 | 98.0965 | 60.4473 | 15610 | 437 | 15615 | 303 | 282 | 93.0693 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 35.3557 | 26.5193 | 53.0233 | 64.2263 | 96 | 266 | 114 | 101 | 94 | 93.0693 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 93.7238 | 95.4086 | 92.0974 | 77.5572 | 2078 | 100 | 1853 | 159 | 148 | 93.0818 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.1904 | 98.9943 | 97.3994 | 67.4787 | 14470 | 147 | 14082 | 376 | 350 | 93.0851 | |
| jli-custom | INDEL | D6_15 | * | * | 98.6381 | 98.1220 | 99.1595 | 51.2932 | 25602 | 490 | 25602 | 217 | 202 | 93.0876 | |
| anovak-vg | INDEL | * | map_l100_m2_e0 | homalt | 76.7170 | 87.3910 | 68.3667 | 80.9419 | 1102 | 159 | 1126 | 521 | 485 | 93.0902 | |
| anovak-vg | INDEL | * | map_l100_m2_e1 | homalt | 76.5374 | 87.4317 | 68.0572 | 81.0009 | 1120 | 161 | 1142 | 536 | 499 | 93.0970 | |
| ckim-isaac | INDEL | I6_15 | HG002compoundhet | * | 78.6319 | 69.8154 | 89.9971 | 31.6672 | 6127 | 2649 | 6127 | 681 | 634 | 93.0984 | |
| eyeh-varpipe | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 0.0000 | 72.1154 | 94.9392 | 0 | 0 | 75 | 29 | 27 | 93.1034 | |
| ckim-isaac | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 97.9052 | 96.1507 | 99.7250 | 58.1999 | 10491 | 420 | 10518 | 29 | 27 | 93.1034 | |
| hfeng-pmm2 | INDEL | D6_15 | * | homalt | 99.3853 | 99.6838 | 99.0886 | 51.6854 | 6306 | 20 | 6306 | 58 | 54 | 93.1034 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0230 | 99.5751 | 98.4769 | 55.3942 | 3750 | 16 | 3750 | 58 | 54 | 93.1034 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0230 | 99.5751 | 98.4769 | 55.3942 | 3750 | 16 | 3750 | 58 | 54 | 93.1034 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 64.8218 | 55.9541 | 77.0297 | 55.2305 | 390 | 307 | 389 | 116 | 108 | 93.1034 | |
| mlin-fermikit | SNP | ti | map_l150_m0_e0 | homalt | 53.2251 | 42.7381 | 70.5320 | 59.3142 | 1180 | 1581 | 1180 | 493 | 459 | 93.1034 | |
| mlin-fermikit | SNP | tv | map_l250_m1_e0 | homalt | 48.6787 | 40.8879 | 60.1375 | 71.4985 | 350 | 506 | 350 | 232 | 216 | 93.1034 | |
| rpoplin-dv42 | SNP | * | map_l100_m2_e0 | homalt | 99.6325 | 99.4768 | 99.7886 | 63.6376 | 27379 | 144 | 27380 | 58 | 54 | 93.1034 | |
| rpoplin-dv42 | SNP | * | map_l100_m2_e1 | homalt | 99.6343 | 99.4783 | 99.7907 | 63.6404 | 27651 | 145 | 27652 | 58 | 54 | 93.1034 | |
| gduggal-snapfb | INDEL | I6_15 | HG002complexvar | homalt | 74.1849 | 64.7446 | 86.8481 | 42.3529 | 786 | 428 | 766 | 116 | 108 | 93.1034 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 71.8529 | 57.2932 | 96.3338 | 35.0041 | 762 | 568 | 762 | 29 | 27 | 93.1034 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.3167 | 98.0869 | 98.5475 | 60.4971 | 15740 | 307 | 15741 | 232 | 216 | 93.1034 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.9561 | 99.6411 | 98.2804 | 53.4169 | 8330 | 30 | 8287 | 145 | 135 | 93.1034 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.9561 | 99.6411 | 98.2804 | 53.4169 | 8330 | 30 | 8287 | 145 | 135 | 93.1034 | |
| eyeh-varpipe | INDEL | D1_5 | * | hetalt | 58.3169 | 41.7179 | 96.8535 | 76.3736 | 4274 | 5971 | 5356 | 174 | 162 | 93.1034 | |
| gduggal-bwaplat | INDEL | D6_15 | HG002complexvar | hetalt | 82.3891 | 72.0632 | 96.1691 | 62.5248 | 730 | 283 | 728 | 29 | 27 | 93.1034 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 83.2726 | 71.7728 | 99.1604 | 47.4357 | 3425 | 1347 | 3425 | 29 | 27 | 93.1034 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 96.3970 | 97.7723 | 95.0598 | 71.0826 | 29801 | 679 | 29633 | 1540 | 1434 | 93.1169 | |
| rpoplin-dv42 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 96.3970 | 97.7723 | 95.0598 | 71.0826 | 29801 | 679 | 29633 | 1540 | 1434 | 93.1169 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 60.3225 | 50.6015 | 74.6667 | 66.7122 | 673 | 657 | 728 | 247 | 230 | 93.1174 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 91.3416 | 88.0522 | 94.8864 | 61.9636 | 3508 | 476 | 3507 | 189 | 176 | 93.1217 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.2431 | 99.2607 | 97.2461 | 57.3108 | 5639 | 42 | 5650 | 160 | 149 | 93.1250 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.8510 | 97.6024 | 98.1008 | 61.8066 | 42296 | 1039 | 42098 | 815 | 759 | 93.1288 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 91.3272 | 98.3182 | 85.2643 | 79.7078 | 760 | 13 | 758 | 131 | 122 | 93.1298 | |
| hfeng-pmm3 | INDEL | D1_5 | HG002compoundhet | * | 95.5863 | 92.3089 | 99.1049 | 60.5859 | 11294 | 941 | 11293 | 102 | 95 | 93.1373 | |
| mlin-fermikit | SNP | ti | map_l125_m0_e0 | homalt | 56.8886 | 46.9829 | 72.0875 | 54.0574 | 2110 | 2381 | 2110 | 817 | 761 | 93.1457 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 36.6255 | 74.3733 | 24.2948 | 50.0227 | 267 | 92 | 267 | 832 | 775 | 93.1490 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 59.9738 | 55.8902 | 64.7011 | 63.2619 | 17554 | 13854 | 17358 | 9470 | 8822 | 93.1573 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 59.9738 | 55.8902 | 64.7011 | 63.2619 | 17554 | 13854 | 17358 | 9470 | 8822 | 93.1573 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 58.1718 | 92.1182 | 42.5074 | 70.5677 | 561 | 48 | 573 | 775 | 722 | 93.1613 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 94.9172 | 93.4909 | 96.3878 | 56.5468 | 2255 | 157 | 3122 | 117 | 109 | 93.1624 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 71.9133 | 95.0643 | 57.8299 | 64.8667 | 13078 | 679 | 12962 | 9452 | 8806 | 93.1655 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 71.9133 | 95.0643 | 57.8299 | 64.8667 | 13078 | 679 | 12962 | 9452 | 8806 | 93.1655 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.0337 | 96.0444 | 98.0437 | 49.4938 | 16972 | 699 | 18343 | 366 | 341 | 93.1694 | |