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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
12451-12500 / 86044 show all | |||||||||||||||
| ckim-dragen | INDEL | D16_PLUS | HG002compoundhet | het | 93.6315 | 98.5185 | 89.2063 | 59.4595 | 399 | 6 | 281 | 34 | 31 | 91.1765 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 94.3619 | 97.5940 | 91.3371 | 87.9208 | 649 | 16 | 485 | 46 | 31 | 67.3913 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 66.4160 | 55.2083 | 83.3333 | 76.5144 | 212 | 172 | 210 | 42 | 31 | 73.8095 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 99.5071 | 99.8869 | 99.1302 | 72.7419 | 3533 | 4 | 3533 | 31 | 31 | 100.0000 | |
| ckim-gatk | SNP | * | HG002complexvar | homalt | 99.2945 | 98.6114 | 99.9870 | 20.0389 | 284567 | 4007 | 284543 | 37 | 31 | 83.7838 | |
| ckim-gatk | SNP | * | map_l125_m0_e0 | * | 76.5382 | 63.0075 | 97.4697 | 89.2235 | 12214 | 7171 | 12211 | 317 | 31 | 9.7792 | |
| ckim-gatk | SNP | tv | map_siren | * | 92.9580 | 88.1058 | 98.3758 | 71.0821 | 40467 | 5463 | 40459 | 668 | 31 | 4.6407 | |
| ckim-dragen | SNP | tv | map_l100_m0_e0 | * | 98.2217 | 98.8903 | 97.5621 | 72.7546 | 10961 | 123 | 10965 | 274 | 31 | 11.3139 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.8001 | 97.9911 | 97.6098 | 69.6269 | 1756 | 36 | 1756 | 43 | 31 | 72.0930 | |
| 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 | |
| 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 | |
| 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 | |
| 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 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 88.6568 | 87.8116 | 89.5184 | 60.6466 | 317 | 44 | 316 | 37 | 30 | 81.0811 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 88.6698 | 84.9899 | 92.6829 | 52.2246 | 419 | 74 | 418 | 33 | 30 | 90.9091 | |
| 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 | |
| raldana-dualsentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.0920 | 99.6785 | 90.9091 | 69.4991 | 310 | 1 | 310 | 31 | 30 | 96.7742 | |
| rpoplin-dv42 | SNP | tv | map_l250_m1_e0 | * | 97.8376 | 97.4311 | 98.2476 | 86.7964 | 2579 | 68 | 2579 | 46 | 30 | 65.2174 | |
| raldana-dualsentieon | SNP | * | map_siren | * | 99.5640 | 99.5698 | 99.5582 | 54.3006 | 145599 | 629 | 145576 | 646 | 30 | 4.6440 | |
| ltrigg-rtg2 | SNP | ti | map_siren | * | 99.4787 | 99.1669 | 99.7924 | 46.9044 | 99518 | 836 | 99513 | 207 | 30 | 14.4928 | |
| mlin-fermikit | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 80.3677 | 72.6804 | 89.8734 | 76.7647 | 282 | 106 | 284 | 32 | 30 | 93.7500 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 97.9660 | 97.1407 | 98.8054 | 65.3168 | 2582 | 76 | 2564 | 31 | 30 | 96.7742 | |
| qzeng-custom | INDEL | D16_PLUS | HG002complexvar | homalt | 82.7833 | 96.8858 | 72.2646 | 69.0795 | 280 | 9 | 284 | 109 | 30 | 27.5229 | |
| qzeng-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 78.8266 | 91.1111 | 69.4611 | 67.7606 | 41 | 4 | 116 | 51 | 30 | 58.8235 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.1272 | 97.5987 | 98.6615 | 84.6994 | 3536 | 87 | 3538 | 48 | 30 | 62.5000 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7349 | 99.8133 | 99.6566 | 54.0176 | 10159 | 19 | 10157 | 35 | 30 | 85.7143 | |
| ndellapenna-hhga | INDEL | D6_15 | HG002compoundhet | hetalt | 65.8129 | 49.3191 | 98.8822 | 29.8693 | 4020 | 4131 | 3450 | 39 | 30 | 76.9231 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 64.0965 | 47.4352 | 98.7989 | 37.2929 | 3403 | 3771 | 2879 | 35 | 30 | 85.7143 | |
| ltrigg-rtg2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 95.5306 | 92.3053 | 98.9896 | 52.2438 | 2963 | 247 | 2939 | 30 | 30 | 100.0000 | |
| ltrigg-rtg2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 95.2032 | 91.8723 | 98.7848 | 43.0326 | 2532 | 224 | 2520 | 31 | 30 | 96.7742 | |
| ndellapenna-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.6789 | 94.2328 | 99.2552 | 26.5783 | 4379 | 268 | 4398 | 33 | 30 | 90.9091 | |
| ndellapenna-hhga | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 86.9385 | 82.2761 | 92.1610 | 61.6572 | 441 | 95 | 435 | 37 | 30 | 81.0811 | |
| ndellapenna-hhga | SNP | * | map_l150_m1_e0 | het | 98.6191 | 97.6082 | 99.6512 | 73.3059 | 18854 | 462 | 18854 | 66 | 30 | 45.4545 | |
| ndellapenna-hhga | SNP | * | map_l150_m2_e0 | het | 98.6606 | 97.6854 | 99.6554 | 74.6307 | 19667 | 466 | 19667 | 68 | 30 | 44.1176 | |
| ndellapenna-hhga | SNP | * | map_l150_m2_e1 | het | 98.6659 | 97.6968 | 99.6544 | 74.7044 | 19894 | 469 | 19894 | 69 | 30 | 43.4783 | |
| ndellapenna-hhga | SNP | * | map_siren | homalt | 99.8258 | 99.7135 | 99.9382 | 52.6378 | 54998 | 158 | 54999 | 34 | 30 | 88.2353 | |
| ndellapenna-hhga | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.1301 | 98.6331 | 99.6322 | 53.5853 | 17607 | 244 | 17606 | 65 | 30 | 46.1538 | |
| ndellapenna-hhga | SNP | tv | HG002complexvar | het | 99.7024 | 99.4520 | 99.9540 | 21.1664 | 149905 | 826 | 149923 | 69 | 30 | 43.4783 | |
| ndellapenna-hhga | SNP | tv | map_siren | * | 99.4997 | 99.1596 | 99.8422 | 55.1910 | 45544 | 386 | 45544 | 72 | 30 | 41.6667 | |
| qzeng-custom | INDEL | * | map_l100_m0_e0 | het | 81.4136 | 75.5142 | 88.3128 | 92.9110 | 771 | 250 | 1005 | 133 | 30 | 22.5564 | |