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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
9301-9350 / 86044 show all | |||||||||||||||
| 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 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.6452 | 99.7262 | 99.5644 | 75.3068 | 33145 | 91 | 33139 | 145 | 104 | 71.7241 | |
| ckim-dragen | INDEL | * | map_siren | het | 97.4637 | 98.1145 | 96.8216 | 84.6377 | 4423 | 85 | 4417 | 145 | 14 | 9.6552 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 90.4880 | 83.4521 | 98.8195 | 30.8039 | 11710 | 2322 | 12138 | 145 | 128 | 88.2759 | |
| ciseli-custom | INDEL | I1_5 | map_l100_m0_e0 | * | 58.4054 | 52.3020 | 66.1215 | 87.8959 | 284 | 259 | 283 | 145 | 118 | 81.3793 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 97.3969 | 99.2733 | 95.5900 | 55.8480 | 3142 | 23 | 3143 | 145 | 133 | 91.7241 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.2419 | 94.8438 | 97.6819 | 61.2333 | 5040 | 274 | 6110 | 145 | 131 | 90.3448 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 96.4762 | 96.4847 | 96.4677 | 49.2144 | 3870 | 141 | 3960 | 145 | 74 | 51.0345 | |
| asubramanian-gatk | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 0.0000 | 0.0000 | 73.0483 | 0 | 0 | 0 | 145 | 0 | 0.0000 | ||
| qzeng-custom | INDEL | D6_15 | map_siren | * | 82.8301 | 89.5874 | 77.0206 | 83.5033 | 456 | 53 | 486 | 145 | 21 | 14.4828 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 90.4777 | 92.0158 | 88.9901 | 86.8129 | 1164 | 101 | 1172 | 145 | 90 | 62.0690 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 89.9656 | 92.6471 | 87.4350 | 59.5797 | 1008 | 80 | 1009 | 145 | 82 | 56.5517 | |
| ndellapenna-hhga | INDEL | I16_PLUS | * | het | 94.4206 | 94.1869 | 94.6554 | 70.0188 | 2560 | 158 | 2568 | 145 | 95 | 65.5172 | |
| ndellapenna-hhga | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.1911 | 97.7409 | 98.6454 | 80.0759 | 10557 | 244 | 10559 | 145 | 73 | 50.3448 | |
| ndellapenna-hhga | SNP | * | segdup | * | 99.5371 | 99.5903 | 99.4839 | 89.2221 | 27952 | 115 | 27952 | 145 | 51 | 35.1724 | |
| gduggal-snapvard | INDEL | C1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 0.0000 | 0.0000 | 24.8705 | 87.2439 | 0 | 0 | 48 | 145 | 9 | 6.2069 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 73.4894 | 61.2085 | 91.9355 | 34.5468 | 1013 | 642 | 1653 | 145 | 143 | 98.6207 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 1.3346 | 25.9259 | 0.6849 | 58.5227 | 7 | 20 | 1 | 145 | 0 | 0.0000 | |
| gduggal-snapvard | SNP | ti | segdup | * | 98.3714 | 97.5175 | 99.2403 | 92.6560 | 19052 | 485 | 18941 | 145 | 46 | 31.7241 | |
| ghariani-varprowl | INDEL | D1_5 | map_l125_m2_e0 | * | 91.9463 | 95.8880 | 88.3159 | 89.5819 | 1096 | 47 | 1096 | 145 | 27 | 18.6207 | |
| gduggal-snapfb | SNP | tv | map_l250_m1_e0 | * | 94.8003 | 95.0510 | 94.5509 | 89.8505 | 2516 | 131 | 2516 | 145 | 53 | 36.5517 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 14.2857 | 100.0000 | 7.6923 | 80.7169 | 12 | 0 | 12 | 144 | 7 | 4.8611 | |
| gduggal-snapfb | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 14.2857 | 100.0000 | 7.6923 | 80.7169 | 12 | 0 | 12 | 144 | 7 | 4.8611 | |
| gduggal-snapplat | INDEL | * | map_l100_m0_e0 | * | 80.3694 | 72.9367 | 89.4891 | 92.8627 | 1140 | 423 | 1226 | 144 | 20 | 13.8889 | |
| gduggal-snapplat | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 92.7199 | 87.6559 | 98.4048 | 61.6199 | 8855 | 1247 | 8883 | 144 | 56 | 38.8889 | |
| ltrigg-rtg1 | SNP | * | map_l100_m2_e1 | het | 99.0006 | 98.3219 | 99.6887 | 57.1362 | 46111 | 787 | 46109 | 144 | 12 | 8.3333 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 81.8991 | 87.2340 | 77.1791 | 62.6848 | 492 | 72 | 487 | 144 | 112 | 77.7778 | |
| jpowers-varprowl | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.2384 | 98.5913 | 97.8879 | 54.8387 | 6649 | 95 | 6674 | 144 | 10 | 6.9444 | |
| hfeng-pmm2 | SNP | ti | map_l150_m1_e0 | het | 99.0031 | 99.1673 | 98.8394 | 78.5331 | 12267 | 103 | 12263 | 144 | 13 | 9.0278 | |
| hfeng-pmm2 | SNP | tv | map_l100_m2_e1 | het | 99.2765 | 99.4541 | 99.0995 | 70.8119 | 15851 | 87 | 15847 | 144 | 12 | 8.3333 | |
| 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 | HG002compoundhet | homalt | 80.0000 | 99.6564 | 66.8203 | 87.9210 | 290 | 1 | 290 | 144 | 143 | 99.3056 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.6271 | 99.6871 | 99.5672 | 75.3638 | 33132 | 104 | 33126 | 144 | 110 | 76.3889 | |
| gduggal-bwafb | SNP | * | map_l250_m2_e0 | * | 97.8174 | 97.4762 | 98.1609 | 89.8565 | 7686 | 199 | 7686 | 144 | 38 | 26.3889 | |
| gduggal-bwavard | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 70.8437 | 85.1449 | 60.6557 | 92.9804 | 235 | 41 | 222 | 144 | 21 | 14.5833 | |
| raldana-dualsentieon | SNP | * | map_l250_m2_e1 | * | 98.1843 | 98.1720 | 98.1966 | 88.3789 | 7841 | 146 | 7841 | 144 | 6 | 4.1667 | |
| raldana-dualsentieon | SNP | tv | map_l125_m2_e1 | * | 99.2171 | 99.2976 | 99.1368 | 71.9418 | 16540 | 117 | 16538 | 144 | 4 | 2.7778 | |
| raldana-dualsentieon | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.3531 | 98.9700 | 99.7391 | 58.7473 | 55058 | 573 | 55048 | 144 | 22 | 15.2778 | |
| qzeng-custom | SNP | tv | map_l250_m1_e0 | * | 76.9830 | 65.9992 | 92.3526 | 95.3560 | 1747 | 900 | 1739 | 144 | 117 | 81.2500 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.0981 | 96.8525 | 99.3761 | 51.0664 | 13324 | 433 | 22937 | 144 | 122 | 84.7222 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.0981 | 96.8525 | 99.3761 | 51.0664 | 13324 | 433 | 22937 | 144 | 122 | 84.7222 | |
| asubramanian-gatk | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.5442 | 98.3435 | 98.7456 | 63.1402 | 10924 | 184 | 11336 | 144 | 15 | 10.4167 | |
| asubramanian-gatk | INDEL | C1_5 | * | homalt | 0.0000 | 0.0000 | 75.4685 | 0 | 0 | 0 | 144 | 0 | 0.0000 | ||
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.0727 | 99.1931 | 98.9527 | 67.4865 | 13646 | 111 | 13605 | 144 | 128 | 88.8889 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.0727 | 99.1931 | 98.9527 | 67.4865 | 13646 | 111 | 13605 | 144 | 128 | 88.8889 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0563 | 99.8206 | 98.3037 | 63.5993 | 8345 | 15 | 8345 | 144 | 142 | 98.6111 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0563 | 99.8206 | 98.3037 | 63.5993 | 8345 | 15 | 8345 | 144 | 142 | 98.6111 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.1397 | 99.2867 | 95.0836 | 54.6384 | 2784 | 20 | 2785 | 144 | 133 | 92.3611 | |
| anovak-vg | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 12.3870 | 7.8603 | 29.2079 | 60.1578 | 54 | 633 | 59 | 143 | 46 | 32.1678 | |