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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
33901-33950 / 86044 show all | |||||||||||||||
| ghariani-varprowl | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 26.8074 | 23.6447 | 30.9468 | 56.6057 | 929 | 3000 | 925 | 2064 | 2051 | 99.3702 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 26.8490 | 23.6502 | 31.0484 | 54.2013 | 311 | 1004 | 308 | 684 | 676 | 98.8304 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 36.7443 | 23.6507 | 82.3171 | 53.0758 | 872 | 2815 | 810 | 174 | 64 | 36.7816 | |
| gduggal-bwavard | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 31.4024 | 23.6715 | 46.6321 | 77.0784 | 98 | 316 | 90 | 103 | 93 | 90.2913 | |
| anovak-vg | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | het | 27.3104 | 23.7037 | 32.2115 | 41.0765 | 32 | 103 | 67 | 141 | 109 | 77.3050 | |
| ciseli-custom | INDEL | I6_15 | map_l100_m1_e0 | het | 35.8974 | 23.7288 | 73.6842 | 90.0524 | 14 | 45 | 14 | 5 | 5 | 100.0000 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 38.1468 | 23.7733 | 96.4789 | 45.0677 | 281 | 901 | 274 | 10 | 7 | 70.0000 | |
| gduggal-bwaplat | SNP | tv | map_l250_m0_e0 | het | 38.3099 | 23.7762 | 98.5507 | 99.1755 | 136 | 436 | 136 | 2 | 0 | 0.0000 | |
| ckim-vqsr | SNP | * | map_l150_m1_e0 | homalt | 38.4351 | 23.7914 | 99.9627 | 90.5070 | 2682 | 8591 | 2682 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 37.7497 | 23.8032 | 91.1628 | 65.8188 | 179 | 573 | 196 | 19 | 15 | 78.9474 | |
| gduggal-snapplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 16.5768 | 23.8066 | 12.7153 | 80.3047 | 384 | 1229 | 406 | 2787 | 32 | 1.1482 | |
| gduggal-snapplat | INDEL | D1_5 | map_siren | hetalt | 34.1880 | 23.8095 | 60.6061 | 98.0287 | 20 | 64 | 20 | 13 | 7 | 53.8462 | |
| gduggal-snapplat | INDEL | * | map_l125_m2_e0 | hetalt | 37.6569 | 23.8095 | 90.0000 | 99.0440 | 10 | 32 | 9 | 1 | 1 | 100.0000 | |
| ghariani-varprowl | INDEL | I16_PLUS | map_siren | homalt | 37.0370 | 23.8095 | 83.3333 | 89.6552 | 5 | 16 | 5 | 1 | 1 | 100.0000 | |
| jpowers-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | * | 26.0805 | 23.8095 | 28.8303 | 55.2030 | 175 | 560 | 175 | 432 | 431 | 99.7685 | |
| jpowers-varprowl | INDEL | I16_PLUS | map_siren | homalt | 37.0370 | 23.8095 | 83.3333 | 89.6552 | 5 | 16 | 5 | 1 | 1 | 100.0000 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 36.3636 | 23.8095 | 76.9231 | 99.8504 | 10 | 32 | 10 | 3 | 0 | 0.0000 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 0.0000 | 23.8290 | 0.0000 | 0.0000 | 407 | 1301 | 0 | 0 | 0 | ||
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 31.1207 | 23.8636 | 44.7205 | 61.1580 | 147 | 469 | 144 | 178 | 166 | 93.2584 | |
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 34.6127 | 23.8776 | 62.8853 | 50.2149 | 117 | 373 | 510 | 301 | 47 | 15.6146 | |
| anovak-vg | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 28.9696 | 23.8776 | 36.8222 | 43.6389 | 117 | 373 | 292 | 501 | 425 | 84.8303 | |
| asubramanian-gatk | SNP | * | map_l125_m0_e0 | het | 38.5630 | 23.9024 | 99.7364 | 95.6908 | 3027 | 9637 | 3027 | 8 | 5 | 62.5000 | |
| asubramanian-gatk | SNP | * | map_l150_m1_e0 | * | 38.6014 | 23.9309 | 99.7548 | 94.4087 | 7325 | 23284 | 7322 | 18 | 5 | 27.7778 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 18.8667 | 23.9437 | 15.5660 | 65.0165 | 17 | 54 | 33 | 179 | 132 | 73.7430 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | hetalt | 0.0000 | 23.9521 | 0.0000 | 0.0000 | 40 | 127 | 0 | 0 | 0 | ||
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 38.1941 | 23.9567 | 94.1423 | 64.6972 | 310 | 984 | 450 | 28 | 28 | 100.0000 | |
| asubramanian-gatk | SNP | tv | map_l125_m1_e0 | homalt | 38.6733 | 23.9761 | 99.9289 | 88.4461 | 1405 | 4455 | 1405 | 1 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I6_15 | map_l150_m1_e0 | * | 38.7097 | 24.0000 | 100.0000 | 97.4265 | 6 | 19 | 7 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | map_l150_m2_e0 | * | 38.7097 | 24.0000 | 100.0000 | 97.7848 | 6 | 19 | 7 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 34.2857 | 24.0000 | 60.0000 | 90.6542 | 6 | 19 | 6 | 4 | 3 | 75.0000 | |
| gduggal-bwaplat | INDEL | * | map_l250_m0_e0 | homalt | 38.7097 | 24.0000 | 100.0000 | 99.3555 | 6 | 19 | 6 | 0 | 0 | ||
| ciseli-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 21.4286 | 24.0000 | 19.3548 | 89.1228 | 6 | 19 | 6 | 25 | 21 | 84.0000 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 28.5107 | 24.0260 | 35.0540 | 65.4357 | 296 | 936 | 292 | 541 | 480 | 88.7246 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | * | 27.6434 | 24.0260 | 32.5431 | 70.1799 | 148 | 468 | 151 | 313 | 312 | 99.6805 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 0.0000 | 24.0312 | 0.0000 | 0.0000 | 1724 | 5450 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 0.0000 | 24.0720 | 0.0000 | 0.0000 | 1712 | 5400 | 0 | 0 | 0 | ||
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 34.5930 | 24.0897 | 61.3362 | 63.5277 | 1429 | 4503 | 1423 | 897 | 832 | 92.7536 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 37.5839 | 24.1033 | 85.2792 | 74.6461 | 168 | 529 | 168 | 29 | 9 | 31.0345 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 34.7356 | 24.1158 | 62.0690 | 73.8149 | 75 | 236 | 72 | 44 | 25 | 56.8182 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 33.4604 | 24.1319 | 54.5455 | 71.7587 | 139 | 437 | 120 | 100 | 1 | 1.0000 | |
| ckim-isaac | INDEL | D6_15 | map_l125_m0_e0 | het | 37.8378 | 24.1379 | 87.5000 | 96.7347 | 7 | 22 | 7 | 1 | 1 | 100.0000 | |
| ciseli-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 34.7933 | 24.1573 | 62.1622 | 74.0351 | 43 | 135 | 46 | 28 | 27 | 96.4286 | |
| gduggal-snapfb | INDEL | I6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 38.7893 | 24.1935 | 97.7778 | 41.5584 | 45 | 141 | 44 | 1 | 1 | 100.0000 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 34.4349 | 24.2003 | 59.6699 | 64.4061 | 1672 | 5237 | 1663 | 1124 | 1036 | 92.1708 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 33.7553 | 24.2424 | 55.5556 | 91.2903 | 16 | 50 | 15 | 12 | 2 | 16.6667 | |
| ckim-isaac | INDEL | I6_15 | map_l100_m1_e0 | homalt | 39.0244 | 24.2424 | 100.0000 | 90.0000 | 8 | 25 | 8 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | map_l100_m2_e0 | homalt | 39.0244 | 24.2424 | 100.0000 | 90.8046 | 8 | 25 | 8 | 0 | 0 | ||
| ckim-isaac | INDEL | I6_15 | map_l100_m2_e1 | homalt | 39.0244 | 24.2424 | 100.0000 | 90.9091 | 8 | 25 | 8 | 0 | 0 | ||
| anovak-vg | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 33.8729 | 24.3264 | 55.7519 | 39.1474 | 948 | 2949 | 1735 | 1377 | 1147 | 83.2970 | |
| gduggal-snapplat | INDEL | D6_15 | map_l100_m2_e1 | * | 37.6750 | 24.3636 | 83.0508 | 94.4076 | 67 | 208 | 49 | 10 | 1 | 10.0000 | |