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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
36651-36700 / 86044 show all | |||||||||||||||
| gduggal-bwavard | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 78.0258 | 97.6378 | 64.9746 | 77.1991 | 124 | 3 | 128 | 69 | 47 | 68.1159 | |
| ghariani-varprowl | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 53.8527 | 45.9807 | 64.9770 | 74.1667 | 143 | 168 | 141 | 76 | 67 | 88.1579 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 63.4268 | 61.9457 | 64.9805 | 71.6420 | 3171 | 1948 | 4342 | 2340 | 1455 | 62.1795 | |
| qzeng-custom | INDEL | I16_PLUS | map_l100_m0_e0 | het | 74.5902 | 87.5000 | 65.0000 | 88.2353 | 7 | 1 | 13 | 7 | 0 | 0.0000 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 11.2554 | 6.1611 | 65.0000 | 68.2540 | 13 | 198 | 13 | 7 | 4 | 57.1429 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 69.3912 | 74.4186 | 65.0000 | 63.6364 | 32 | 11 | 39 | 21 | 20 | 95.2381 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | het | 51.8908 | 43.1818 | 65.0000 | 89.0710 | 19 | 25 | 13 | 7 | 3 | 42.8571 | |
| gduggal-bwavard | INDEL | * | lowcmp_AllRepeats_gt200bp_gt95identity_merged | * | 65.0000 | 65.0000 | 65.0000 | 99.6383 | 13 | 7 | 13 | 7 | 5 | 71.4286 | |
| gduggal-bwavard | INDEL | D16_PLUS | map_l150_m1_e0 | * | 74.2857 | 86.6667 | 65.0000 | 95.8932 | 13 | 2 | 13 | 7 | 2 | 28.5714 | |
| gduggal-bwafb | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 60.4651 | 56.5217 | 65.0000 | 70.1493 | 13 | 10 | 13 | 7 | 6 | 85.7143 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 76.7889 | 93.7761 | 65.0122 | 76.1162 | 26925 | 1787 | 27218 | 14648 | 266 | 1.8160 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 76.7889 | 93.7761 | 65.0122 | 76.1162 | 26925 | 1787 | 27218 | 14648 | 266 | 1.8160 | |
| ghariani-varprowl | INDEL | D6_15 | * | * | 61.5999 | 58.5275 | 65.0128 | 56.9372 | 15271 | 10821 | 15265 | 8215 | 8072 | 98.2593 | |
| anovak-vg | INDEL | I6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 47.4248 | 37.3206 | 65.0316 | 30.6257 | 156 | 262 | 411 | 221 | 186 | 84.1629 | |
| ciseli-custom | SNP | ti | HG002compoundhet | het | 71.3901 | 79.1057 | 65.0459 | 46.7631 | 7519 | 1986 | 7585 | 4076 | 149 | 3.6555 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 45.6818 | 35.2014 | 65.0485 | 65.2418 | 201 | 370 | 201 | 108 | 80 | 74.0741 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 73.0717 | 83.3333 | 65.0602 | 84.3396 | 55 | 11 | 54 | 29 | 28 | 96.5517 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 40.3615 | 29.2553 | 65.0602 | 70.8772 | 55 | 133 | 54 | 29 | 19 | 65.5172 | |
| ciseli-custom | INDEL | I1_5 | map_l150_m1_e0 | * | 55.6515 | 48.6166 | 65.0667 | 91.6126 | 246 | 260 | 244 | 131 | 111 | 84.7328 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 76.4026 | 92.5078 | 65.0735 | 61.5548 | 889 | 72 | 1062 | 570 | 543 | 95.2632 | |
| ciseli-custom | INDEL | I6_15 | map_siren | het | 39.1268 | 27.9720 | 65.0794 | 86.1842 | 40 | 103 | 41 | 22 | 21 | 95.4545 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 18.9387 | 11.0818 | 65.0794 | 81.9484 | 42 | 337 | 41 | 22 | 12 | 54.5455 | |
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 56.9297 | 50.5845 | 65.0951 | 55.0427 | 1601 | 1564 | 1712 | 918 | 650 | 70.8061 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 78.1790 | 97.7444 | 65.1399 | 76.7730 | 260 | 6 | 256 | 137 | 5 | 3.6496 | |
| gduggal-bwavard | INDEL | * | map_l250_m1_e0 | het | 77.8894 | 96.8421 | 65.1408 | 96.6811 | 184 | 6 | 185 | 99 | 13 | 13.1313 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 38.1445 | 26.9663 | 65.1515 | 73.2794 | 48 | 130 | 43 | 23 | 4 | 17.3913 | |
| anovak-vg | SNP | * | map_l150_m1_e0 | het | 75.5953 | 89.9876 | 65.1719 | 80.5681 | 17382 | 1934 | 17193 | 9188 | 2064 | 22.4641 | |
| ciseli-custom | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 77.4124 | 95.3132 | 65.1724 | 81.3112 | 6345 | 312 | 6426 | 3434 | 185 | 5.3873 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 69.0871 | 73.4873 | 65.1842 | 73.1680 | 923 | 333 | 938 | 501 | 130 | 25.9481 | |
| anovak-vg | INDEL | D1_5 | map_l250_m2_e1 | het | 72.2986 | 81.1475 | 65.1899 | 96.1529 | 99 | 23 | 103 | 55 | 22 | 40.0000 | |
| gduggal-snapplat | INDEL | * | map_l100_m1_e0 | hetalt | 21.5440 | 12.9032 | 65.2174 | 98.3076 | 16 | 108 | 15 | 8 | 5 | 62.5000 | |
| gduggal-bwavard | INDEL | D16_PLUS | map_l150_m2_e0 | * | 75.0000 | 88.2353 | 65.2174 | 95.9147 | 15 | 2 | 15 | 8 | 2 | 25.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | map_l150_m2_e1 | het | 76.9231 | 93.7500 | 65.2174 | 95.5166 | 15 | 1 | 15 | 8 | 2 | 25.0000 | |
| ciseli-custom | INDEL | C6_15 | HG002complexvar | het | 56.6038 | 50.0000 | 65.2174 | 92.6045 | 2 | 2 | 15 | 8 | 0 | 0.0000 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 68.9655 | 73.1707 | 65.2174 | 70.5128 | 30 | 11 | 30 | 16 | 13 | 81.2500 | |
| anovak-vg | INDEL | * | segdup | homalt | 76.7205 | 93.1250 | 65.2299 | 92.3073 | 894 | 66 | 908 | 484 | 445 | 91.9421 | |
| ciseli-custom | SNP | tv | lowcmp_SimpleRepeat_diTR_11to50 | het | 76.8078 | 93.2966 | 65.2719 | 67.9320 | 2881 | 207 | 2917 | 1552 | 48 | 3.0928 | |
| gduggal-snapfb | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 42.8058 | 31.8436 | 65.2778 | 41.9355 | 57 | 122 | 47 | 25 | 3 | 12.0000 | |
| ghariani-varprowl | INDEL | I16_PLUS | map_siren | * | 59.4937 | 54.6512 | 65.2778 | 81.5385 | 47 | 39 | 47 | 25 | 24 | 96.0000 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | het | 69.3130 | 73.8369 | 65.3114 | 41.5571 | 1222 | 433 | 1510 | 802 | 609 | 75.9352 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 63.4692 | 61.7158 | 65.3251 | 67.3472 | 4122 | 2557 | 5746 | 3050 | 1349 | 44.2295 | |
| jlack-gatk | INDEL | * | map_l250_m0_e0 | het | 76.5625 | 92.4528 | 65.3333 | 98.4280 | 49 | 4 | 49 | 26 | 0 | 0.0000 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 23.7665 | 14.5247 | 65.3430 | 41.4376 | 191 | 1124 | 181 | 96 | 38 | 39.5833 | |
| mlin-fermikit | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 74.5853 | 86.8721 | 65.3433 | 69.9161 | 761 | 115 | 609 | 323 | 321 | 99.3808 | |
| anovak-vg | SNP | ti | map_l150_m1_e0 | het | 75.5864 | 89.6281 | 65.3485 | 80.5450 | 11087 | 1283 | 11006 | 5836 | 1295 | 22.1899 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 65.6349 | 65.9236 | 65.3487 | 72.3679 | 828 | 428 | 909 | 482 | 71 | 14.7303 | |
| anovak-vg | SNP | tv | map_l150_m2_e0 | het | 75.9484 | 90.6371 | 65.3567 | 81.6125 | 6573 | 679 | 6569 | 3482 | 815 | 23.4061 | |
| anovak-vg | INDEL | I16_PLUS | segdup | * | 48.3031 | 38.2979 | 65.3846 | 88.6463 | 18 | 29 | 17 | 9 | 5 | 55.5556 | |
| ckim-isaac | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_51to200 | het | 71.6186 | 79.1667 | 65.3846 | 43.4783 | 19 | 5 | 17 | 9 | 9 | 100.0000 | |
| eyeh-varpipe | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 21.6364 | 12.9630 | 65.3846 | 59.3750 | 14 | 94 | 17 | 9 | 9 | 100.0000 | |