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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
56901-56950 / 86044 show all | |||||||||||||||
| ckim-dragen | INDEL | * | map_l100_m2_e0 | hetalt | 94.5148 | 89.6000 | 100.0000 | 86.6040 | 112 | 13 | 114 | 0 | 0 | ||
| ckim-dragen | INDEL | * | map_l125_m1_e0 | homalt | 98.4239 | 98.2240 | 98.6245 | 85.5150 | 719 | 13 | 717 | 10 | 6 | 60.0000 | |
| ckim-dragen | INDEL | * | map_l125_m2_e0 | homalt | 98.4233 | 98.2962 | 98.5507 | 86.5115 | 750 | 13 | 748 | 11 | 6 | 54.5455 | |
| ckim-dragen | INDEL | * | map_l125_m2_e1 | homalt | 98.4458 | 98.3204 | 98.5714 | 86.6180 | 761 | 13 | 759 | 11 | 6 | 54.5455 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.1368 | 98.7619 | 99.5146 | 57.7002 | 1037 | 13 | 1025 | 5 | 4 | 80.0000 | |
| cchapple-custom | INDEL | I1_5 | map_l100_m0_e0 | het | 95.6165 | 96.0123 | 95.2239 | 86.1513 | 313 | 13 | 319 | 16 | 3 | 18.7500 | |
| cchapple-custom | INDEL | I1_5 | map_siren | homalt | 99.3361 | 98.9274 | 99.7481 | 76.2512 | 1199 | 13 | 1188 | 3 | 2 | 66.6667 | |
| cchapple-custom | SNP | * | segdup | homalt | 99.8463 | 99.8790 | 99.8136 | 87.7694 | 10730 | 13 | 10710 | 20 | 20 | 100.0000 | |
| ciseli-custom | INDEL | * | tech_badpromoters | homalt | 65.5738 | 60.6061 | 71.4286 | 50.0000 | 20 | 13 | 20 | 8 | 7 | 87.5000 | |
| ckim-dragen | INDEL | D1_5 | map_l150_m2_e1 | het | 96.2144 | 97.5096 | 94.9533 | 90.7487 | 509 | 13 | 508 | 27 | 2 | 7.4074 | |
| ckim-dragen | INDEL | D1_5 | map_siren | homalt | 99.2693 | 98.8870 | 99.6546 | 81.5458 | 1155 | 13 | 1154 | 4 | 3 | 75.0000 | |
| ckim-dragen | INDEL | D6_15 | map_l100_m2_e1 | * | 96.5009 | 95.2727 | 97.7612 | 88.6200 | 262 | 13 | 262 | 6 | 1 | 16.6667 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 96.7383 | 95.4861 | 98.0237 | 80.6575 | 275 | 13 | 248 | 5 | 5 | 100.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.1853 | 99.0462 | 99.3248 | 77.9742 | 1350 | 13 | 1324 | 9 | 2 | 22.2222 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | hetalt | 96.9121 | 94.0092 | 100.0000 | 39.1549 | 204 | 13 | 216 | 0 | 0 | ||
| ckim-dragen | INDEL | I1_5 | map_l125_m0_e0 | * | 95.6449 | 95.8065 | 95.4839 | 89.2324 | 297 | 13 | 296 | 14 | 4 | 28.5714 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.0388 | 96.6321 | 97.4490 | 90.6108 | 373 | 13 | 382 | 10 | 2 | 20.0000 | |
| ckim-dragen | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 98.7368 | 98.6330 | 98.8409 | 85.1301 | 938 | 13 | 938 | 11 | 4 | 36.3636 | |
| ckim-dragen | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 99.8953 | 99.9243 | 99.8662 | 56.6428 | 17164 | 13 | 17169 | 23 | 7 | 30.4348 | |
| ckim-dragen | SNP | * | segdup | homalt | 99.9022 | 99.8790 | 99.9255 | 87.7402 | 10730 | 13 | 10730 | 8 | 8 | 100.0000 | |
| ckim-dragen | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.0631 | 98.4795 | 99.6536 | 52.7550 | 842 | 13 | 863 | 3 | 1 | 33.3333 | |
| ckim-dragen | SNP | tv | segdup | * | 98.3491 | 99.8476 | 96.8949 | 93.2025 | 8519 | 13 | 8519 | 273 | 6 | 2.1978 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.7100 | 99.6412 | 99.7789 | 75.9521 | 3610 | 13 | 3610 | 8 | 3 | 37.5000 | |
| ckim-gatk | INDEL | * | map_l125_m0_e0 | * | 95.2938 | 98.5261 | 92.2669 | 92.7054 | 869 | 13 | 871 | 73 | 6 | 8.2192 | |
| ckim-gatk | INDEL | * | map_l150_m1_e0 | het | 93.9968 | 98.4795 | 89.9044 | 93.5685 | 842 | 13 | 846 | 95 | 6 | 6.3158 | |
| ckim-gatk | INDEL | * | map_l150_m2_e0 | het | 94.2693 | 98.5651 | 90.3323 | 93.9690 | 893 | 13 | 897 | 96 | 6 | 6.2500 | |
| ckim-gatk | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.2428 | 98.0451 | 88.8889 | 87.2266 | 652 | 13 | 488 | 61 | 51 | 83.6066 | |
| ckim-gatk | INDEL | D1_5 | HG002complexvar | homalt | 99.8633 | 99.8773 | 99.8492 | 60.1757 | 10585 | 13 | 10592 | 16 | 14 | 87.5000 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 89.6000 | 81.1594 | 100.0000 | 52.5424 | 56 | 13 | 56 | 0 | 0 | ||
| ckim-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 72.4655 | 91.2162 | 60.1093 | 74.5125 | 135 | 13 | 110 | 73 | 72 | 98.6301 | |
| ckim-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.1978 | 94.7154 | 97.7273 | 88.5833 | 233 | 13 | 215 | 5 | 3 | 60.0000 | |
| ckim-gatk | INDEL | I1_5 | HG002complexvar | homalt | 99.8588 | 99.9033 | 99.8143 | 52.9260 | 13435 | 13 | 13441 | 25 | 24 | 96.0000 | |
| ckim-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 91.6129 | 84.5238 | 100.0000 | 53.8961 | 71 | 13 | 71 | 0 | 0 | ||
| ckim-gatk | INDEL | I1_5 | map_l100_m1_e0 | het | 97.0881 | 98.3269 | 95.8801 | 89.2469 | 764 | 13 | 768 | 33 | 1 | 3.0303 | |
| ckim-gatk | INDEL | I1_5 | map_l100_m2_e0 | het | 97.1459 | 98.3607 | 95.9608 | 90.0195 | 780 | 13 | 784 | 33 | 1 | 3.0303 | |
| ckim-gatk | INDEL | I1_5 | map_l100_m2_e1 | het | 97.2049 | 98.3951 | 96.0432 | 90.0501 | 797 | 13 | 801 | 33 | 1 | 3.0303 | |
| ckim-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 88.0734 | 78.6885 | 100.0000 | 52.4752 | 48 | 13 | 48 | 0 | 0 | ||
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 97.5163 | 96.6321 | 98.4169 | 91.0275 | 373 | 13 | 373 | 6 | 4 | 66.6667 | |
| ckim-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 99.2068 | 99.2630 | 99.1506 | 88.9811 | 1751 | 13 | 1751 | 15 | 13 | 86.6667 | |
| ckim-gatk | SNP | ti | * | hetalt | 98.5281 | 97.7663 | 99.3019 | 52.5269 | 569 | 13 | 569 | 4 | 4 | 100.0000 | |
| ckim-gatk | SNP | ti | HG002compoundhet | hetalt | 98.8646 | 97.7547 | 100.0000 | 22.2527 | 566 | 13 | 566 | 0 | 0 | ||
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 99.2254 | 99.0858 | 99.3653 | 88.4800 | 1409 | 13 | 1409 | 9 | 8 | 88.8889 | |
| ckim-isaac | INDEL | D16_PLUS | map_l100_m1_e0 | homalt | 23.5294 | 13.3333 | 100.0000 | 94.4444 | 2 | 13 | 2 | 0 | 0 | ||
| ckim-isaac | INDEL | D16_PLUS | map_l150_m1_e0 | * | 22.2222 | 13.3333 | 66.6667 | 97.7099 | 2 | 13 | 2 | 1 | 0 | 0.0000 | |
| ckim-isaac | INDEL | D16_PLUS | map_l150_m1_e0 | het | 12.5000 | 7.1429 | 50.0000 | 98.1481 | 1 | 13 | 1 | 1 | 0 | 0.0000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 87.1765 | 82.4324 | 92.5000 | 74.6032 | 61 | 13 | 74 | 6 | 6 | 100.0000 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 85.5172 | 82.6667 | 88.5714 | 44.4444 | 62 | 13 | 62 | 8 | 5 | 62.5000 | |
| ckim-isaac | INDEL | D6_15 | map_l100_m0_e0 | homalt | 62.8571 | 45.8333 | 100.0000 | 74.4186 | 11 | 13 | 11 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | hetalt | 83.1081 | 75.0000 | 93.1818 | 44.3038 | 39 | 13 | 41 | 3 | 1 | 33.3333 | |
| ckim-vqsr | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.9022 | 98.6444 | 99.1614 | 72.9208 | 946 | 13 | 946 | 8 | 6 | 75.0000 | |