PrecisionFDA
Truth Challenge
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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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
84201-84250 / 86044 show all | |||||||||||||||
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.3761 | 95.8604 | 98.9406 | 51.0374 | 36333 | 1569 | 36144 | 387 | 350 | 90.4393 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.1590 | 96.0055 | 98.3406 | 45.9292 | 36388 | 1514 | 49009 | 827 | 740 | 89.4800 | |
| asubramanian-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.2302 | 96.1664 | 96.2940 | 60.8295 | 36449 | 1453 | 39105 | 1505 | 1051 | 69.8339 | |
| gduggal-snapvard | SNP | ti | map_siren | homalt | 97.9831 | 96.2100 | 99.8227 | 51.8924 | 36479 | 1437 | 36035 | 64 | 54 | 84.3750 | |
| gduggal-bwaplat | SNP | tv | map_siren | * | 88.3540 | 79.4753 | 99.4660 | 75.2106 | 36503 | 9427 | 36507 | 196 | 50 | 25.5102 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.2034 | 96.5701 | 97.8450 | 55.8440 | 36602 | 1300 | 36414 | 802 | 774 | 96.5087 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 98.1115 | 96.7548 | 99.5067 | 50.1900 | 36672 | 1230 | 36914 | 183 | 147 | 80.3279 | |
| gduggal-bwavard | SNP | ti | map_siren | homalt | 98.3235 | 96.7850 | 99.9118 | 51.1238 | 36697 | 1219 | 36241 | 32 | 28 | 87.5000 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.1935 | 96.8999 | 97.4889 | 57.0530 | 36727 | 1175 | 36532 | 941 | 927 | 98.5122 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 57.9193 | 56.2153 | 59.7299 | 62.4801 | 36735 | 28612 | 56563 | 38135 | 29523 | 77.4171 | |
| gduggal-snapvard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 57.9193 | 56.2153 | 59.7299 | 62.4801 | 36735 | 28612 | 56563 | 38135 | 29523 | 77.4171 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.4429 | 96.9236 | 97.9678 | 56.0572 | 36736 | 1166 | 36542 | 758 | 728 | 96.0422 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.2376 | 96.9527 | 97.5243 | 55.9478 | 36747 | 1155 | 36556 | 928 | 901 | 97.0905 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 85.6704 | 84.8021 | 86.5567 | 80.2451 | 36749 | 6586 | 37209 | 5779 | 5249 | 90.8289 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.4678 | 96.9896 | 97.9508 | 56.0360 | 36761 | 1141 | 36567 | 765 | 735 | 96.0784 | |
| ndellapenna-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 85.7255 | 84.9037 | 86.5634 | 80.2326 | 36793 | 6542 | 37456 | 5814 | 5159 | 88.7341 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.9489 | 97.2165 | 98.6923 | 51.4779 | 36847 | 1055 | 36679 | 486 | 451 | 92.7984 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.6838 | 97.4223 | 97.9467 | 56.1751 | 36925 | 977 | 36731 | 770 | 739 | 95.9740 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.7491 | 97.4988 | 98.0006 | 56.6076 | 36954 | 948 | 36761 | 750 | 723 | 96.4000 | |
| qzeng-custom | SNP | * | map_l100_m2_e0 | het | 87.9050 | 79.8638 | 97.7467 | 81.4691 | 37056 | 9343 | 36699 | 846 | 656 | 77.5414 | |
| cchapple-custom | SNP | ti | map_siren | homalt | 99.1409 | 98.3094 | 99.9866 | 47.3567 | 37275 | 641 | 37258 | 5 | 5 | 100.0000 | |
| gduggal-snapfb | SNP | ti | map_siren | homalt | 99.1394 | 98.4334 | 99.8555 | 57.8682 | 37322 | 594 | 37322 | 54 | 29 | 53.7037 | |
| qzeng-custom | SNP | * | map_l100_m2_e1 | het | 87.9932 | 79.9949 | 97.7685 | 81.4422 | 37516 | 9382 | 37154 | 848 | 656 | 77.3585 | |
| anovak-vg | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 75.7760 | 77.8397 | 73.8189 | 67.4300 | 37574 | 10697 | 51936 | 18420 | 13343 | 72.4376 | |
| ckim-isaac | SNP | * | map_siren | homalt | 81.0505 | 68.1522 | 99.9707 | 46.5592 | 37590 | 17566 | 37591 | 11 | 11 | 100.0000 | |
| jlack-gatk | SNP | ti | map_siren | homalt | 99.6031 | 99.2879 | 99.9204 | 49.0602 | 37646 | 270 | 37640 | 30 | 20 | 66.6667 | |
| ghariani-varprowl | SNP | ti | map_siren | homalt | 99.5932 | 99.4435 | 99.7434 | 52.5183 | 37705 | 211 | 37706 | 97 | 56 | 57.7320 | |
| jpowers-varprowl | SNP | ti | map_siren | homalt | 99.6196 | 99.4567 | 99.7830 | 54.0684 | 37710 | 206 | 37711 | 82 | 57 | 69.5122 | |
| ckim-dragen | SNP | ti | map_siren | homalt | 99.7132 | 99.4936 | 99.9338 | 47.4447 | 37724 | 192 | 37726 | 25 | 23 | 92.0000 | |
| gduggal-bwafb | SNP | ti | map_siren | homalt | 99.7291 | 99.5253 | 99.9338 | 52.9575 | 37736 | 180 | 37736 | 25 | 14 | 56.0000 | |
| qzeng-custom | SNP | ti | map_l100_m1_e0 | * | 87.5018 | 78.7403 | 98.4572 | 75.1333 | 37741 | 10190 | 37460 | 587 | 485 | 82.6235 | |
| astatham-gatk | SNP | ti | map_siren | homalt | 99.7489 | 99.5437 | 99.9550 | 48.8366 | 37743 | 173 | 37737 | 17 | 16 | 94.1176 | |
| dgrover-gatk | SNP | ti | map_siren | homalt | 99.8204 | 99.6914 | 99.9498 | 49.0891 | 37799 | 117 | 37793 | 19 | 17 | 89.4737 | |
| ndellapenna-hhga | SNP | ti | map_siren | homalt | 99.8244 | 99.7072 | 99.9418 | 51.3860 | 37805 | 111 | 37806 | 22 | 20 | 90.9091 | |
| rpoplin-dv42 | SNP | ti | map_siren | homalt | 99.8060 | 99.7283 | 99.8838 | 52.4445 | 37813 | 103 | 37814 | 44 | 42 | 95.4545 | |
| ltrigg-rtg2 | SNP | ti | map_siren | homalt | 99.8455 | 99.7415 | 99.9498 | 49.3967 | 37818 | 98 | 37812 | 19 | 18 | 94.7368 | |
| jli-custom | SNP | ti | map_siren | homalt | 99.8561 | 99.7521 | 99.9604 | 48.6440 | 37822 | 94 | 37819 | 15 | 15 | 100.0000 | |
| bgallagher-sentieon | SNP | ti | map_siren | homalt | 99.8535 | 99.7547 | 99.9524 | 48.7705 | 37823 | 93 | 37817 | 18 | 16 | 88.8889 | |
| egarrison-hhga | SNP | ti | map_siren | homalt | 99.8640 | 99.7732 | 99.9551 | 52.1965 | 37830 | 86 | 37830 | 17 | 15 | 88.2353 | |
| ltrigg-rtg1 | SNP | ti | map_siren | homalt | 99.8522 | 99.7758 | 99.9287 | 51.0640 | 37831 | 85 | 37826 | 27 | 26 | 96.2963 | |
| ciseli-custom | INDEL | * | HG002complexvar | het | 83.6520 | 81.8863 | 85.4955 | 58.3237 | 37838 | 8370 | 38019 | 6450 | 2732 | 42.3566 | |
| raldana-dualsentieon | SNP | ti | map_siren | homalt | 99.8878 | 99.8127 | 99.9630 | 48.3820 | 37845 | 71 | 37839 | 14 | 14 | 100.0000 | |
| eyeh-varpipe | SNP | ti | map_siren | homalt | 99.8945 | 99.8734 | 99.9157 | 53.2558 | 37868 | 48 | 36723 | 31 | 17 | 54.8387 | |
| hfeng-pmm1 | SNP | ti | map_siren | homalt | 99.9011 | 99.8760 | 99.9261 | 52.1075 | 37869 | 47 | 37865 | 28 | 18 | 64.2857 | |
| hfeng-pmm3 | SNP | ti | map_siren | homalt | 99.9129 | 99.8892 | 99.9367 | 51.9265 | 37874 | 42 | 37868 | 24 | 14 | 58.3333 | |
| hfeng-pmm2 | SNP | ti | map_siren | homalt | 99.9103 | 99.8998 | 99.9208 | 52.1071 | 37878 | 38 | 37872 | 30 | 20 | 66.6667 | |
| ckim-isaac | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 90.8083 | 87.4974 | 94.3796 | 47.9598 | 37917 | 5418 | 37363 | 2225 | 1830 | 82.2472 | |
| astatham-gatk | SNP | * | map_l125_m1_e0 | * | 91.2465 | 84.0779 | 99.7513 | 74.8310 | 38110 | 7217 | 38104 | 95 | 43 | 45.2632 | |
| gduggal-bwaplat | INDEL | * | HG002complexvar | het | 89.8971 | 82.6214 | 98.5779 | 61.4508 | 38181 | 8031 | 38126 | 550 | 282 | 51.2727 | |
| gduggal-bwavard | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 59.6850 | 58.5729 | 60.8400 | 68.6799 | 38278 | 27073 | 38154 | 24558 | 22520 | 91.7013 | |