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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
26651-26700 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 91.2260 | 85.8491 | 97.3214 | 84.7411 | 91 | 15 | 109 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 92.7523 | 87.8049 | 98.2906 | 88.1579 | 216 | 30 | 230 | 4 | 3 | 75.0000 | |
| asubramanian-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 97.2940 | 95.6186 | 99.0291 | 76.0326 | 371 | 17 | 408 | 4 | 3 | 75.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 99.1530 | 98.6794 | 99.6313 | 77.5757 | 1345 | 18 | 1351 | 5 | 3 | 60.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.7495 | 99.7934 | 99.7056 | 64.6549 | 966 | 2 | 1016 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.5619 | 97.6596 | 99.4810 | 64.5181 | 459 | 11 | 575 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | HG002complexvar | het | 98.1220 | 96.6454 | 99.6443 | 60.1594 | 2276 | 79 | 2241 | 8 | 3 | 37.5000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 92.5816 | 87.6404 | 98.1132 | 73.8056 | 156 | 22 | 156 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 94.5946 | 97.2222 | 92.1053 | 70.3125 | 35 | 1 | 35 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 97.2687 | 95.4802 | 99.1254 | 71.1036 | 338 | 16 | 340 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 96.7391 | 96.7391 | 96.7391 | 70.4180 | 89 | 3 | 89 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 81.6845 | 71.0843 | 96.0000 | 30.5556 | 59 | 24 | 72 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 0.0000 | 0.0000 | 25.0000 | 78.9474 | 0 | 0 | 1 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.4507 | 98.1481 | 98.7552 | 66.1041 | 212 | 4 | 238 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 0.0000 | 0.0000 | 57.1429 | 83.3333 | 0 | 0 | 4 | 3 | 3 | 100.0000 | |
| asubramanian-gatk | INDEL | I6_15 | map_siren | * | 94.0200 | 90.1639 | 98.2206 | 86.0753 | 275 | 30 | 276 | 5 | 3 | 60.0000 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 87.2342 | 94.3005 | 81.1530 | 90.5033 | 364 | 22 | 366 | 85 | 3 | 3.5294 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 88.1816 | 92.7536 | 84.0391 | 90.9546 | 256 | 20 | 258 | 49 | 3 | 6.1225 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 99.3297 | 98.9174 | 99.7455 | 57.3296 | 10964 | 120 | 10972 | 28 | 3 | 10.7143 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.1659 | 98.5874 | 99.7512 | 54.8686 | 6002 | 86 | 6015 | 15 | 3 | 20.0000 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 98.0571 | 98.8804 | 97.2473 | 44.6639 | 11305 | 128 | 11305 | 320 | 3 | 0.9375 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 82.5309 | 93.0070 | 74.1758 | 91.4794 | 133 | 10 | 135 | 47 | 3 | 6.3830 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 85.4071 | 93.1373 | 78.8618 | 92.1305 | 95 | 7 | 97 | 26 | 3 | 11.5385 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.1282 | 98.9531 | 99.3039 | 35.7393 | 7278 | 77 | 7276 | 51 | 3 | 5.8824 | |
| asubramanian-gatk | SNP | * | map_l150_m0_e0 | * | 31.2706 | 18.5422 | 99.7318 | 96.8590 | 2231 | 9801 | 2231 | 6 | 3 | 50.0000 | |
| asubramanian-gatk | SNP | * | map_l150_m0_e0 | het | 34.0434 | 20.5290 | 99.6333 | 97.2059 | 1630 | 6310 | 1630 | 6 | 3 | 50.0000 | |
| asubramanian-gatk | SNP | ti | HG002compoundhet | homalt | 98.3931 | 96.8894 | 99.9442 | 30.6032 | 7164 | 230 | 7164 | 4 | 3 | 75.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 92.9792 | 91.0891 | 94.9495 | 93.3557 | 92 | 9 | 94 | 5 | 3 | 60.0000 | |
| asubramanian-gatk | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | het | 93.0931 | 90.9091 | 95.3846 | 93.9309 | 60 | 6 | 62 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | * | hetalt | 95.0034 | 90.6101 | 99.8444 | 57.6357 | 1901 | 197 | 1925 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 94.4079 | 91.7293 | 97.2477 | 87.7252 | 122 | 11 | 106 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 93.9997 | 91.5094 | 96.6292 | 86.8148 | 97 | 9 | 86 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 96.1978 | 94.7154 | 97.7273 | 88.4393 | 233 | 13 | 215 | 5 | 3 | 60.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | HG002compoundhet | hetalt | 96.4336 | 93.1377 | 99.9714 | 55.3771 | 10410 | 767 | 10470 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.4365 | 95.0488 | 99.9472 | 61.8862 | 5644 | 294 | 5679 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.3716 | 99.1196 | 99.6249 | 77.6829 | 1351 | 12 | 1328 | 5 | 3 | 60.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.8453 | 100.0000 | 99.6910 | 64.2094 | 968 | 0 | 968 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.4413 | 100.0000 | 98.8889 | 66.0804 | 267 | 0 | 267 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m0_e0 | * | 98.5355 | 98.8950 | 98.1785 | 84.8343 | 537 | 6 | 539 | 10 | 3 | 30.0000 | |
| bgallagher-sentieon | INDEL | I1_5 | map_l100_m0_e0 | homalt | 99.0476 | 100.0000 | 98.1132 | 80.2054 | 208 | 0 | 208 | 4 | 3 | 75.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | * | hetalt | 95.3960 | 91.2291 | 99.9618 | 38.0362 | 7801 | 750 | 7841 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 96.6396 | 95.5466 | 97.7578 | 80.8255 | 236 | 11 | 218 | 5 | 3 | 60.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.5714 | 93.4487 | 99.9101 | 42.6066 | 3295 | 231 | 3335 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 94.4606 | 91.0112 | 98.1818 | 72.4541 | 162 | 16 | 162 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 96.0000 | 100.0000 | 92.3077 | 68.5484 | 36 | 0 | 36 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.7246 | 98.3051 | 99.1477 | 70.1442 | 348 | 6 | 349 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.3957 | 100.0000 | 96.8421 | 69.7452 | 92 | 0 | 92 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 95.4289 | 94.6309 | 96.2406 | 77.3424 | 141 | 8 | 128 | 5 | 3 | 60.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.1822 | 92.7531 | 99.8747 | 34.7506 | 2355 | 184 | 2391 | 3 | 3 | 100.0000 | |
| bgallagher-sentieon | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.3958 | 98.0100 | 98.7847 | 72.5975 | 591 | 12 | 569 | 7 | 3 | 42.8571 | |