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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
73551-73600 / 86044 show all | |||||||||||||||
| ciseli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 85.2750 | 89.1170 | 81.7505 | 62.2628 | 434 | 53 | 439 | 98 | 30 | 30.6122 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 61.9624 | 60.8696 | 63.0952 | 62.8319 | 56 | 36 | 53 | 31 | 30 | 96.7742 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 85.0816 | 98.0660 | 75.1335 | 65.0221 | 3803 | 75 | 3798 | 1257 | 30 | 2.3866 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 96.7471 | 99.7835 | 93.8900 | 68.9437 | 461 | 1 | 461 | 30 | 30 | 100.0000 | |
| ckim-dragen | INDEL | D1_5 | HG002complexvar | homalt | 99.7544 | 99.8207 | 99.6881 | 60.4958 | 10579 | 19 | 10549 | 33 | 30 | 90.9091 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.5871 | 95.8024 | 99.4396 | 50.7631 | 5683 | 249 | 5678 | 32 | 30 | 93.7500 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.5290 | 95.6844 | 99.4462 | 41.4708 | 5676 | 256 | 5746 | 32 | 30 | 93.7500 | |
| ciseli-custom | INDEL | * | func_cds | * | 84.1100 | 83.3708 | 84.8624 | 37.1758 | 371 | 74 | 370 | 66 | 30 | 45.4545 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | het | 54.6535 | 62.0000 | 48.8636 | 68.3453 | 31 | 19 | 43 | 45 | 30 | 66.6667 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.5789 | 95.9353 | 99.2797 | 63.8316 | 5098 | 216 | 5100 | 37 | 30 | 81.0811 | |
| ckim-gatk | SNP | * | map_l125_m0_e0 | het | 79.9330 | 68.2249 | 96.4920 | 90.8886 | 8640 | 4024 | 8637 | 314 | 30 | 9.5541 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 95.2832 | 91.6502 | 99.2161 | 44.8245 | 5565 | 507 | 5569 | 44 | 30 | 68.1818 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.9160 | 99.5572 | 96.3281 | 83.1889 | 1349 | 6 | 1233 | 47 | 30 | 63.8298 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.8156 | 94.2210 | 99.5572 | 26.7488 | 6701 | 411 | 6745 | 30 | 30 | 100.0000 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.8070 | 94.2013 | 99.5609 | 27.3655 | 6758 | 416 | 6802 | 30 | 30 | 100.0000 | |
| gduggal-snapvard | SNP | tv | map_l250_m1_e0 | * | 84.2656 | 95.6932 | 75.2762 | 90.8080 | 2533 | 114 | 2521 | 828 | 30 | 3.6232 | |
| ghariani-varprowl | INDEL | * | func_cds | * | 91.6388 | 92.3596 | 90.9292 | 61.0680 | 411 | 34 | 411 | 41 | 30 | 73.1707 | |
| ghariani-varprowl | INDEL | * | map_l125_m0_e0 | * | 91.1268 | 94.8980 | 87.6440 | 95.1166 | 837 | 45 | 837 | 118 | 30 | 25.4237 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | het | 27.2727 | 75.0000 | 16.6667 | 61.7021 | 6 | 2 | 6 | 30 | 30 | 100.0000 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 82.2695 | 94.2516 | 72.9904 | 73.0327 | 869 | 53 | 908 | 336 | 30 | 8.9286 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 86.4339 | 93.3208 | 80.4936 | 78.1982 | 992 | 71 | 1011 | 245 | 30 | 12.2449 | |
| gduggal-snapvard | INDEL | D6_15 | map_l125_m1_e0 | het | 77.8579 | 87.5000 | 70.1299 | 85.8326 | 56 | 8 | 108 | 46 | 30 | 65.2174 | |
| gduggal-snapvard | INDEL | I1_5 | HG002compoundhet | homalt | 81.6095 | 75.9878 | 88.1295 | 56.7652 | 250 | 79 | 245 | 33 | 30 | 90.9091 | |
| gduggal-snapvard | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 82.5113 | 95.2894 | 72.7551 | 82.9109 | 3095 | 153 | 3095 | 1159 | 30 | 2.5884 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 78.1322 | 87.6543 | 70.4762 | 77.5161 | 71 | 10 | 74 | 31 | 30 | 96.7742 | |
| ghariani-varprowl | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 94.0874 | 98.5460 | 90.0149 | 70.2400 | 34904 | 515 | 35077 | 3891 | 30 | 0.7710 | |
| ghariani-varprowl | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 97.4868 | 99.6732 | 95.3942 | 70.2853 | 1220 | 4 | 1222 | 59 | 30 | 50.8475 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 31.9191 | 20.6647 | 70.0935 | 57.9568 | 342 | 1313 | 300 | 128 | 30 | 23.4375 | |
| gduggal-snapplat | SNP | * | segdup | * | 98.9750 | 98.7209 | 99.2304 | 93.4858 | 27708 | 359 | 27723 | 215 | 30 | 13.9535 | |
| gduggal-snapplat | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 48.5964 | 51.3854 | 46.0946 | 95.3289 | 408 | 386 | 419 | 490 | 30 | 6.1225 | |
| gduggal-snapplat | SNP | tv | lowcmp_SimpleRepeat_quadTR_11to50 | * | 81.2213 | 71.4171 | 94.1457 | 64.2321 | 5322 | 2130 | 5339 | 332 | 30 | 9.0361 | |
| gduggal-snapfb | SNP | * | map_l100_m2_e0 | homalt | 98.4327 | 97.2060 | 99.6907 | 70.5354 | 26754 | 769 | 26756 | 83 | 30 | 36.1446 | |
| gduggal-snapfb | SNP | * | map_l100_m2_e1 | homalt | 98.4483 | 97.2334 | 99.6939 | 70.5179 | 27027 | 769 | 27029 | 83 | 30 | 36.1446 | |
| gduggal-snapfb | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 51.9003 | 97.6253 | 35.3454 | 76.8757 | 1480 | 36 | 1499 | 2742 | 30 | 1.0941 | |
| gduggal-snapplat | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | homalt | 49.8073 | 51.0638 | 48.6111 | 53.5484 | 24 | 23 | 35 | 37 | 30 | 81.0811 | |
| gduggal-snapfb | SNP | ti | map_l250_m0_e0 | * | 93.6877 | 92.6277 | 94.7722 | 93.6399 | 1269 | 101 | 1269 | 70 | 31 | 44.2857 | |
| gduggal-snapplat | INDEL | * | map_l100_m1_e0 | het | 79.4811 | 73.6018 | 86.3811 | 92.1058 | 1645 | 590 | 1795 | 283 | 31 | 10.9541 | |
| gduggal-snapvard | SNP | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 76.2490 | 94.7944 | 63.7727 | 85.1927 | 2859 | 157 | 2850 | 1619 | 31 | 1.9148 | |
| gduggal-snapvard | SNP | ti | map_l100_m1_e0 | homalt | 97.9288 | 96.1470 | 99.7778 | 60.0714 | 17268 | 692 | 17067 | 38 | 31 | 81.5789 | |
| gduggal-snapvard | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.3899 | 98.2619 | 98.5182 | 61.1046 | 6897 | 122 | 6848 | 103 | 31 | 30.0971 | |
| gduggal-snapvard | SNP | tv | map_l250_m2_e0 | * | 84.9127 | 95.5933 | 76.3788 | 91.3348 | 2755 | 127 | 2742 | 848 | 31 | 3.6557 | |
| gduggal-snapvard | SNP | tv | map_l250_m2_e1 | * | 84.9786 | 95.5761 | 76.4966 | 91.4134 | 2787 | 129 | 2773 | 852 | 31 | 3.6385 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_51to200 | * | 20.9302 | 19.5652 | 22.5000 | 62.6168 | 9 | 37 | 9 | 31 | 31 | 100.0000 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 84.4875 | 91.0761 | 78.7879 | 71.3873 | 694 | 68 | 702 | 189 | 31 | 16.4021 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 73.8072 | 96.5392 | 59.7403 | 70.7317 | 530 | 19 | 552 | 372 | 31 | 8.3333 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 53.0409 | 42.6966 | 70.0000 | 56.1753 | 76 | 102 | 77 | 33 | 31 | 93.9394 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 73.5213 | 72.9508 | 74.1007 | 51.5679 | 89 | 33 | 103 | 36 | 31 | 86.1111 | |
| gduggal-snapvard | INDEL | C1_5 | * | homalt | 0.0000 | 0.0000 | 93.2755 | 88.9976 | 0 | 0 | 860 | 62 | 31 | 50.0000 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 63.8406 | 59.0164 | 69.5238 | 78.0335 | 72 | 50 | 73 | 32 | 31 | 96.8750 | |
| ghariani-varprowl | INDEL | I1_5 | map_l100_m1_e0 | * | 93.9359 | 94.3241 | 93.5508 | 86.7120 | 1263 | 76 | 1262 | 87 | 31 | 35.6322 | |