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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
53801-53850 / 86044 show all | |||||||||||||||
| ndellapenna-hhga | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.1298 | 99.5085 | 98.7541 | 58.9047 | 1822 | 9 | 1823 | 23 | 1 | 4.3478 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 87.7499 | 80.8367 | 95.9562 | 58.8989 | 599 | 142 | 1139 | 48 | 25 | 52.0833 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.9949 | 98.9848 | 99.0050 | 58.8957 | 195 | 2 | 199 | 2 | 2 | 100.0000 | |
| gduggal-bwavard | INDEL | * | HG002compoundhet | * | 14.6648 | 14.4226 | 14.9152 | 58.8895 | 4321 | 25639 | 4329 | 24695 | 23984 | 97.1209 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 98.4586 | 97.3913 | 99.5495 | 58.8889 | 224 | 6 | 221 | 1 | 1 | 100.0000 | |
| ckim-isaac | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 96.1945 | 93.5761 | 98.9636 | 58.8872 | 25900 | 1778 | 26068 | 273 | 187 | 68.4982 | |
| mlin-fermikit | INDEL | * | HG002compoundhet | het | 43.9232 | 77.6258 | 30.6263 | 58.8856 | 3178 | 916 | 2983 | 6757 | 6682 | 98.8900 | |
| astatham-gatk | INDEL | D16_PLUS | HG002compoundhet | het | 88.8320 | 99.5062 | 80.2260 | 58.8850 | 403 | 2 | 284 | 70 | 68 | 97.1429 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | * | 74.6805 | 73.6967 | 75.6909 | 58.8837 | 4962 | 1771 | 4957 | 1592 | 1522 | 95.6030 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.0758 | 99.2593 | 98.8930 | 58.8771 | 268 | 2 | 268 | 3 | 3 | 100.0000 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 93.3178 | 93.0147 | 93.6229 | 58.8750 | 1012 | 76 | 1013 | 69 | 50 | 72.4638 | |
| cchapple-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 99.5322 | 99.5322 | 99.5322 | 58.8745 | 851 | 4 | 851 | 4 | 0 | 0.0000 | |
| dgrover-gatk | INDEL | D1_5 | HG002compoundhet | hetalt | 97.3579 | 95.2232 | 99.5905 | 58.8743 | 9728 | 488 | 9729 | 40 | 39 | 97.5000 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 84.5480 | 74.7368 | 97.3244 | 58.8721 | 284 | 96 | 291 | 8 | 7 | 87.5000 | |
| ghariani-varprowl | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 47.1992 | 32.7962 | 84.1592 | 58.8707 | 1038 | 2127 | 1036 | 195 | 177 | 90.7692 | |
| ckim-dragen | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 99.4934 | 99.5943 | 99.3927 | 58.8676 | 491 | 2 | 491 | 3 | 0 | 0.0000 | |
| qzeng-custom | INDEL | * | * | het | 97.1762 | 98.2811 | 96.0960 | 58.8639 | 190796 | 3337 | 217691 | 8844 | 3946 | 44.6178 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 75.8244 | 61.6505 | 98.4615 | 58.8608 | 127 | 79 | 128 | 2 | 1 | 50.0000 | |
| astatham-gatk | INDEL | * | * | homalt | 99.5755 | 99.8874 | 99.2657 | 58.8575 | 125031 | 141 | 125041 | 925 | 908 | 98.1622 | |
| gduggal-snapvard | SNP | tv | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.0218 | 96.6030 | 99.4830 | 58.8566 | 9754 | 343 | 9622 | 50 | 26 | 52.0000 | |
| ckim-gatk | SNP | tv | map_siren | homalt | 89.2983 | 80.6845 | 99.9712 | 58.8566 | 13910 | 3330 | 13907 | 4 | 3 | 75.0000 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 97.4803 | 98.6631 | 96.3255 | 58.8553 | 369 | 5 | 367 | 14 | 8 | 57.1429 | |
| ghariani-varprowl | INDEL | D6_15 | HG002complexvar | het | 84.7743 | 95.1923 | 76.4117 | 58.8552 | 2970 | 150 | 2977 | 919 | 877 | 95.4298 | |
| hfeng-pmm2 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | homalt | 99.8914 | 99.7831 | 100.0000 | 58.8551 | 1380 | 3 | 1380 | 0 | 0 | ||
| ndellapenna-hhga | SNP | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 99.2273 | 98.7916 | 99.6668 | 58.8530 | 34991 | 428 | 34997 | 117 | 50 | 42.7350 | |
| bgallagher-sentieon | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.2548 | 94.9731 | 99.6489 | 58.8526 | 14642 | 775 | 14759 | 52 | 52 | 100.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 49.1296 | 32.8185 | 97.6744 | 58.8517 | 85 | 174 | 84 | 2 | 2 | 100.0000 | |
| anovak-vg | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 98.4369 | 98.7908 | 98.0854 | 58.8485 | 3840 | 47 | 3996 | 78 | 33 | 42.3077 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.0556 | 96.6386 | 97.4762 | 58.8481 | 17077 | 594 | 17071 | 442 | 432 | 97.7376 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.0556 | 96.6386 | 97.4762 | 58.8481 | 17077 | 594 | 17071 | 442 | 432 | 97.7376 | |
| gduggal-bwavard | INDEL | D6_15 | HG002complexvar | het | 83.6960 | 96.5705 | 73.8504 | 58.8480 | 3013 | 107 | 2923 | 1035 | 940 | 90.8213 | |
| jmaeng-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 94.1277 | 91.4144 | 97.0070 | 58.8480 | 2204 | 207 | 2204 | 68 | 66 | 97.0588 | |
| asubramanian-gatk | INDEL | D6_15 | HG002complexvar | * | 97.5846 | 96.7748 | 98.4081 | 58.8477 | 5131 | 171 | 5131 | 83 | 77 | 92.7711 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 96.8059 | 98.5000 | 95.1691 | 58.8469 | 197 | 3 | 197 | 10 | 9 | 90.0000 | |
| eyeh-varpipe | INDEL | D6_15 | HG002complexvar | hetalt | 51.3277 | 35.9329 | 89.8020 | 58.8427 | 364 | 649 | 907 | 103 | 102 | 99.0291 | |
| ltrigg-rtg1 | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 99.4350 | 99.2509 | 99.6198 | 58.8419 | 265 | 2 | 262 | 1 | 0 | 0.0000 | |
| rpoplin-dv42 | INDEL | I6_15 | HG002complexvar | het | 96.6823 | 95.9660 | 97.4093 | 58.8413 | 2260 | 95 | 2256 | 60 | 55 | 91.6667 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 92.9543 | 91.5421 | 94.4108 | 58.8410 | 5877 | 543 | 11520 | 682 | 569 | 83.4311 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 92.9543 | 91.5421 | 94.4108 | 58.8410 | 5877 | 543 | 11520 | 682 | 569 | 83.4311 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 41.9959 | 48.5830 | 36.9818 | 58.8396 | 120 | 127 | 223 | 380 | 217 | 57.1053 | |
| anovak-vg | INDEL | D1_5 | * | homalt | 93.1579 | 92.5438 | 93.7802 | 58.8390 | 45278 | 3648 | 45761 | 3035 | 2387 | 78.6491 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 97.4564 | 98.1618 | 96.7610 | 58.8376 | 16127 | 302 | 16132 | 540 | 515 | 95.3704 | |
| ndellapenna-hhga | INDEL | D1_5 | * | homalt | 99.1101 | 99.1497 | 99.0705 | 58.8372 | 48510 | 416 | 48497 | 455 | 260 | 57.1429 | |
| jpowers-varprowl | SNP | ti | map_siren | * | 98.7281 | 98.3847 | 99.0739 | 58.8371 | 98734 | 1621 | 98737 | 923 | 255 | 27.6273 | |
| ghariani-varprowl | INDEL | D6_15 | HG002complexvar | * | 76.3894 | 73.9155 | 79.0345 | 58.8274 | 3919 | 1383 | 3913 | 1038 | 969 | 93.3526 | |
| raldana-dualsentieon | SNP | ti | map_l100_m2_e0 | homalt | 99.8196 | 99.7105 | 99.9288 | 58.8267 | 18256 | 53 | 18256 | 13 | 12 | 92.3077 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 99.2719 | 98.7603 | 99.7888 | 58.8261 | 956 | 12 | 945 | 2 | 2 | 100.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | HG002complexvar | het | 98.4917 | 97.0701 | 99.9556 | 58.8257 | 2286 | 69 | 2250 | 1 | 1 | 100.0000 | |
| rpoplin-dv42 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 99.9198 | 99.9599 | 99.8798 | 58.8255 | 2493 | 1 | 2493 | 3 | 1 | 33.3333 | |
| raldana-dualsentieon | INDEL | D6_15 | tech_badpromoters | het | 82.3529 | 70.0000 | 100.0000 | 58.8235 | 7 | 3 | 7 | 0 | 0 | ||