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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
80651-80700 / 86044 show all | |||||||||||||||
| jlack-gatk | INDEL | D1_5 | HG002compoundhet | hetalt | 95.0540 | 90.9554 | 99.5394 | 57.6003 | 9292 | 924 | 9293 | 43 | 40 | 93.0233 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 95.5302 | 94.7711 | 96.3016 | 56.4893 | 16747 | 924 | 16743 | 643 | 577 | 89.7356 | |
| jlack-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 95.5302 | 94.7711 | 96.3016 | 56.4893 | 16747 | 924 | 16743 | 643 | 577 | 89.7356 | |
| eyeh-varpipe | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 9.8376 | 5.2308 | 82.4742 | 81.6635 | 51 | 924 | 80 | 17 | 16 | 94.1176 | |
| rpoplin-dv42 | SNP | ti | * | het | 99.9511 | 99.9279 | 99.9742 | 18.1937 | 1280967 | 924 | 1280907 | 330 | 164 | 49.6970 | |
| astatham-gatk | SNP | * | map_l250_m1_e0 | * | 92.7803 | 87.1919 | 99.1341 | 90.2158 | 6297 | 925 | 6297 | 55 | 19 | 34.5455 | |
| qzeng-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 89.2141 | 84.4066 | 94.6024 | 34.3983 | 5007 | 925 | 11480 | 655 | 637 | 97.2519 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 82.4573 | 73.9961 | 93.1034 | 68.3567 | 2635 | 926 | 2673 | 198 | 164 | 82.8283 | |
| egarrison-hhga | INDEL | D1_5 | HG002complexvar | * | 97.4539 | 97.1695 | 97.7400 | 55.3894 | 31789 | 926 | 31787 | 735 | 582 | 79.1837 | |
| gduggal-snapfb | SNP | * | map_l125_m0_e0 | * | 95.4423 | 95.2231 | 95.6625 | 77.2744 | 18459 | 926 | 18460 | 837 | 394 | 47.0729 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 89.3383 | 88.9709 | 89.7087 | 51.9572 | 7470 | 926 | 12596 | 1445 | 343 | 23.7370 | |
| jpowers-varprowl | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 50.2630 | 46.4740 | 54.7247 | 37.4043 | 804 | 926 | 805 | 666 | 663 | 99.5495 | |
| mlin-fermikit | INDEL | * | map_l125_m2_e0 | * | 69.1050 | 57.7869 | 85.9364 | 82.6204 | 1269 | 927 | 1271 | 208 | 160 | 76.9231 | |
| raldana-dualsentieon | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.8972 | 93.9872 | 99.9932 | 58.6098 | 14490 | 927 | 14606 | 1 | 1 | 100.0000 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 0.0000 | 1.8008 | 0.0000 | 0.0000 | 17 | 927 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | D6_15 | * | het | 70.9404 | 91.9945 | 57.7285 | 54.4042 | 10664 | 928 | 10689 | 7827 | 7764 | 99.1951 | |
| dgrover-gatk | INDEL | I1_5 | * | * | 99.5294 | 99.3841 | 99.6753 | 59.0782 | 149736 | 928 | 149786 | 488 | 385 | 78.8934 | |
| mlin-fermikit | SNP | ti | map_l250_m1_e0 | homalt | 53.4856 | 42.2526 | 72.8541 | 73.1257 | 679 | 928 | 679 | 253 | 229 | 90.5138 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 90.9106 | 86.5682 | 95.7115 | 51.1635 | 5981 | 928 | 4419 | 198 | 174 | 87.8788 | |
| gduggal-bwavard | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 32.0845 | 29.5144 | 35.1449 | 62.1659 | 389 | 929 | 388 | 716 | 700 | 97.7654 | |
| jpowers-varprowl | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 83.4657 | 81.8519 | 85.1445 | 71.6183 | 4190 | 929 | 4184 | 730 | 709 | 97.1233 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 93.3376 | 91.6367 | 95.1028 | 49.5731 | 10179 | 929 | 9943 | 512 | 284 | 55.4688 | |
| ciseli-custom | SNP | ti | map_l100_m0_e0 | homalt | 88.5269 | 88.0499 | 89.0090 | 60.4888 | 6845 | 929 | 6835 | 844 | 695 | 82.3460 | |
| jlack-gatk | INDEL | D1_5 | * | hetalt | 95.0041 | 90.9322 | 99.4577 | 62.5612 | 9316 | 929 | 9354 | 51 | 46 | 90.1961 | |
| hfeng-pmm3 | SNP | ti | HG002complexvar | * | 99.9019 | 99.8171 | 99.9868 | 17.4486 | 507506 | 930 | 507446 | 67 | 25 | 37.3134 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 29.6071 | 24.5130 | 37.3737 | 73.8468 | 302 | 930 | 481 | 806 | 369 | 45.7816 | |
| ckim-gatk | INDEL | I1_5 | HG002compoundhet | hetalt | 95.6413 | 91.6793 | 99.9612 | 55.8202 | 10247 | 930 | 10308 | 4 | 4 | 100.0000 | |
| egarrison-hhga | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 94.1721 | 98.0713 | 90.5711 | 70.5632 | 47340 | 931 | 48307 | 5029 | 4714 | 93.7363 | |
| mlin-fermikit | INDEL | * | map_l125_m2_e1 | * | 69.4080 | 58.1573 | 86.0558 | 82.7274 | 1294 | 931 | 1296 | 210 | 161 | 76.6667 | |
| ltrigg-rtg2 | INDEL | * | * | homalt | 99.5524 | 99.2554 | 99.8512 | 52.3128 | 124239 | 932 | 124115 | 185 | 162 | 87.5676 | |
| ckim-gatk | INDEL | I1_5 | * | hetalt | 95.6301 | 91.6749 | 99.9419 | 60.1212 | 10263 | 932 | 10325 | 6 | 5 | 83.3333 | |
| gduggal-bwaplat | SNP | ti | map_l250_m0_e0 | * | 48.2606 | 31.8978 | 99.0930 | 98.5682 | 437 | 933 | 437 | 4 | 0 | 0.0000 | |
| hfeng-pmm3 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.4704 | 93.2214 | 99.9539 | 31.0883 | 12831 | 933 | 13019 | 6 | 5 | 83.3333 | |
| raldana-dualsentieon | INDEL | I6_15 | HG002compoundhet | * | 92.3351 | 89.3573 | 95.5182 | 36.0215 | 7842 | 934 | 7843 | 368 | 366 | 99.4565 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 96.9266 | 94.4029 | 99.5890 | 36.4317 | 15770 | 935 | 15992 | 66 | 64 | 96.9697 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 96.9266 | 94.4029 | 99.5890 | 36.4317 | 15770 | 935 | 15992 | 66 | 64 | 96.9697 | |
| cchapple-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 97.9358 | 97.0774 | 98.8095 | 45.2536 | 31057 | 935 | 41417 | 499 | 447 | 89.5792 | |
| cchapple-custom | INDEL | I1_5 | * | het | 99.2835 | 98.8171 | 99.7543 | 58.7353 | 78106 | 935 | 89725 | 221 | 127 | 57.4661 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | * | 4.6119 | 2.5026 | 29.3478 | 74.2297 | 24 | 935 | 27 | 65 | 39 | 60.0000 | |
| gduggal-snapvard | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 26.7835 | 20.7451 | 37.7805 | 22.4371 | 245 | 936 | 303 | 499 | 460 | 92.1844 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 79.8828 | 68.6011 | 95.6054 | 61.8717 | 2045 | 936 | 2045 | 94 | 28 | 29.7872 | |
| gduggal-bwavard | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_51to200 | * | 28.5107 | 24.0260 | 35.0540 | 65.4357 | 296 | 936 | 292 | 541 | 480 | 88.7246 | |
| jlack-gatk | INDEL | D6_15 | * | * | 96.4774 | 96.4127 | 96.5422 | 54.8116 | 25156 | 936 | 25156 | 901 | 581 | 64.4839 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 93.7961 | 88.8038 | 99.3832 | 46.4455 | 7424 | 936 | 7412 | 46 | 33 | 71.7391 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 93.7961 | 88.8038 | 99.3832 | 46.4455 | 7424 | 936 | 7412 | 46 | 33 | 71.7391 | |
| hfeng-pmm3 | INDEL | * | HG002complexvar | het | 98.8973 | 97.9724 | 99.8399 | 56.4422 | 45275 | 937 | 44901 | 72 | 42 | 58.3333 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.1846 | 98.5457 | 99.8318 | 70.9620 | 63494 | 937 | 63506 | 107 | 86 | 80.3738 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 89.6510 | 84.0909 | 95.9984 | 54.3693 | 4958 | 938 | 2351 | 98 | 96 | 97.9592 | |
| gduggal-bwafb | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 89.6510 | 84.0909 | 95.9984 | 54.3693 | 4958 | 938 | 2351 | 98 | 96 | 97.9592 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 85.0109 | 74.4135 | 99.1279 | 56.8517 | 2728 | 938 | 2728 | 24 | 21 | 87.5000 | |