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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
37201-37250 / 86044 show all | |||||||||||||||
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 85.5433 | 76.2190 | 97.4669 | 52.9093 | 7894 | 2463 | 7888 | 205 | 168 | 81.9512 | |
| gduggal-bwavard | INDEL | D6_15 | map_l125_m2_e0 | het | 85.5348 | 98.5915 | 75.5319 | 93.2325 | 70 | 1 | 71 | 23 | 16 | 69.5652 | |
| qzeng-custom | INDEL | * | map_l100_m2_e0 | homalt | 85.5333 | 78.7470 | 93.5994 | 81.7141 | 993 | 268 | 1360 | 93 | 14 | 15.0538 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 85.5315 | 91.2031 | 80.5239 | 75.2676 | 705 | 68 | 707 | 171 | 82 | 47.9532 | |
| eyeh-varpipe | INDEL | I1_5 | map_l100_m0_e0 | hetalt | 85.5305 | 77.7778 | 95.0000 | 91.5966 | 7 | 2 | 19 | 1 | 1 | 100.0000 | |
| hfeng-pmm1 | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 85.5263 | 74.7126 | 100.0000 | 99.9004 | 65 | 22 | 64 | 0 | 0 | ||
| ciseli-custom | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 85.5234 | 96.3184 | 76.9043 | 63.8905 | 34115 | 1304 | 34337 | 10312 | 215 | 2.0850 | |
| anovak-vg | INDEL | D6_15 | segdup | homalt | 85.5227 | 82.0000 | 89.3617 | 91.4234 | 41 | 9 | 42 | 5 | 3 | 60.0000 | |
| anovak-vg | INDEL | D1_5 | map_l150_m2_e0 | homalt | 85.5172 | 76.8595 | 96.3731 | 89.4304 | 186 | 56 | 186 | 7 | 6 | 85.7143 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_51to200 | * | 85.5172 | 82.6667 | 88.5714 | 44.4444 | 62 | 13 | 62 | 8 | 5 | 62.5000 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 85.5129 | 76.5088 | 96.9190 | 34.7374 | 3651 | 1121 | 3649 | 116 | 114 | 98.2759 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 85.5127 | 86.3519 | 84.6897 | 75.2304 | 5340 | 844 | 5349 | 967 | 23 | 2.3785 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 85.5100 | 74.7706 | 99.8519 | 27.0270 | 652 | 220 | 674 | 1 | 1 | 100.0000 | |
| ckim-vqsr | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 85.5072 | 98.6072 | 75.4797 | 48.5746 | 354 | 5 | 354 | 115 | 114 | 99.1304 | |
| astatham-gatk | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 85.5072 | 98.6072 | 75.4797 | 48.5181 | 354 | 5 | 354 | 115 | 114 | 99.1304 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 85.5068 | 76.3231 | 97.2028 | 39.0192 | 274 | 85 | 278 | 8 | 8 | 100.0000 | |
| ckim-isaac | INDEL | I1_5 | map_siren | hetalt | 85.4934 | 76.7857 | 96.4286 | 82.2410 | 86 | 26 | 81 | 3 | 2 | 66.6667 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 85.4858 | 93.1258 | 79.0043 | 75.2743 | 1436 | 106 | 1460 | 388 | 46 | 11.8557 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 85.4801 | 83.0652 | 88.0396 | 45.1406 | 981 | 200 | 979 | 133 | 132 | 99.2481 | |
| egarrison-hhga | INDEL | D16_PLUS | map_l100_m0_e0 | het | 85.4749 | 89.4737 | 81.8182 | 90.4348 | 17 | 2 | 18 | 4 | 2 | 50.0000 | |
| ndellapenna-hhga | INDEL | D16_PLUS | map_l100_m0_e0 | het | 85.4749 | 89.4737 | 81.8182 | 90.9836 | 17 | 2 | 18 | 4 | 0 | 0.0000 | |
| ckim-gatk | SNP | ti | map_l150_m2_e0 | het | 85.4716 | 76.2984 | 97.1519 | 89.8925 | 9828 | 3053 | 9824 | 288 | 33 | 11.4583 | |
| cchapple-custom | INDEL | D16_PLUS | map_siren | * | 85.4653 | 85.3147 | 85.6164 | 91.3558 | 122 | 21 | 125 | 21 | 10 | 47.6190 | |
| gduggal-bwaplat | INDEL | D6_15 | map_siren | homalt | 85.4626 | 74.6154 | 100.0000 | 85.9216 | 97 | 33 | 97 | 0 | 0 | ||
| gduggal-snapfb | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 85.4625 | 82.9902 | 88.0866 | 50.9735 | 766 | 157 | 244 | 33 | 29 | 87.8788 | |
| gduggal-snapplat | SNP | tv | map_l250_m0_e0 | homalt | 85.4599 | 74.6114 | 100.0000 | 95.3201 | 144 | 49 | 144 | 0 | 0 | ||
| egarrison-hhga | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 85.4542 | 76.7025 | 96.4602 | 65.3905 | 214 | 65 | 218 | 8 | 7 | 87.5000 | |
| astatham-gatk | SNP | ti | map_l125_m1_e0 | het | 85.4533 | 74.7728 | 99.6933 | 79.6242 | 13658 | 4608 | 13654 | 42 | 19 | 45.2381 | |
| gduggal-snapplat | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 85.4527 | 79.0606 | 92.9693 | 74.0678 | 9039 | 2394 | 9058 | 685 | 58 | 8.4672 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 85.4522 | 98.1108 | 75.6868 | 87.8606 | 779 | 15 | 551 | 177 | 16 | 9.0396 | |
| qzeng-custom | INDEL | D6_15 | map_siren | homalt | 85.4475 | 90.0000 | 81.3333 | 76.9231 | 117 | 13 | 122 | 28 | 4 | 14.2857 | |
| hfeng-pmm3 | INDEL | D16_PLUS | HG002compoundhet | het | 85.4445 | 90.8642 | 80.6349 | 57.3748 | 368 | 37 | 254 | 61 | 60 | 98.3607 | |
| ciseli-custom | INDEL | * | segdup | homalt | 85.4420 | 87.9167 | 83.1028 | 93.1884 | 844 | 116 | 841 | 171 | 150 | 87.7193 | |
| hfeng-pmm2 | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | * | 85.4414 | 79.6287 | 92.1694 | 54.6077 | 1673 | 428 | 1589 | 135 | 130 | 96.2963 | |
| qzeng-custom | INDEL | D1_5 | map_l150_m2_e0 | homalt | 85.4395 | 75.6198 | 98.1900 | 87.8035 | 183 | 59 | 217 | 4 | 4 | 100.0000 | |
| ndellapenna-hhga | INDEL | I16_PLUS | map_siren | het | 85.4369 | 89.7959 | 81.4815 | 84.9162 | 44 | 5 | 44 | 10 | 7 | 70.0000 | |
| jpowers-varprowl | INDEL | D6_15 | map_l150_m2_e1 | het | 85.4369 | 93.6170 | 78.5714 | 92.8844 | 44 | 3 | 44 | 12 | 12 | 100.0000 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 85.4358 | 82.8084 | 88.2353 | 65.4739 | 631 | 131 | 630 | 84 | 79 | 94.0476 | |
| ckim-isaac | INDEL | I1_5 | map_l100_m2_e1 | * | 85.4353 | 75.2688 | 98.7770 | 84.4363 | 1050 | 345 | 1050 | 13 | 5 | 38.4615 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 85.4276 | 75.0062 | 99.2121 | 42.1023 | 3022 | 1007 | 3022 | 24 | 22 | 91.6667 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 85.4267 | 79.7078 | 92.0297 | 56.2094 | 982 | 250 | 993 | 86 | 52 | 60.4651 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 85.4239 | 80.6452 | 90.8046 | 75.2137 | 50 | 12 | 158 | 16 | 16 | 100.0000 | |
| ckim-vqsr | SNP | * | map_l100_m2_e1 | het | 85.4225 | 75.1205 | 98.9994 | 84.8723 | 35230 | 11668 | 35222 | 356 | 13 | 3.6517 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 85.4215 | 78.1353 | 94.2062 | 35.5484 | 6386 | 1787 | 2065 | 127 | 67 | 52.7559 | |
| gduggal-snapvard | INDEL | D1_5 | map_l125_m1_e0 | het | 85.4186 | 98.2094 | 75.5757 | 89.1583 | 713 | 13 | 919 | 297 | 91 | 30.6397 | |
| ckim-isaac | INDEL | I1_5 | map_l100_m2_e0 | * | 85.4172 | 75.1462 | 98.9403 | 84.3863 | 1028 | 340 | 1027 | 11 | 5 | 45.4545 | |
| hfeng-pmm2 | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 85.4167 | 81.1881 | 90.1099 | 93.4106 | 82 | 19 | 82 | 9 | 0 | 0.0000 | |
| gduggal-snapfb | INDEL | D6_15 | map_l125_m1_e0 | het | 85.4139 | 78.1250 | 94.2029 | 79.5252 | 50 | 14 | 65 | 4 | 3 | 75.0000 | |
| gduggal-bwaplat | SNP | tv | map_l100_m2_e1 | het | 85.4123 | 75.0157 | 99.1542 | 86.7876 | 11956 | 3982 | 11958 | 102 | 20 | 19.6078 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | het | 85.4071 | 93.1373 | 78.8618 | 92.1305 | 95 | 7 | 97 | 26 | 3 | 11.5385 | |