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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
37501-37550 / 86044 show all | |||||||||||||||
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 79.0557 | 93.1620 | 68.6595 | 75.7645 | 5981 | 439 | 5926 | 2705 | 2382 | 88.0591 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 79.0557 | 93.1620 | 68.6595 | 75.7645 | 5981 | 439 | 5926 | 2705 | 2382 | 88.0591 | |
| anovak-vg | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 61.2783 | 55.3295 | 68.6604 | 44.0399 | 2040 | 1647 | 1963 | 896 | 675 | 75.3348 | |
| qzeng-custom | INDEL | D16_PLUS | * | het | 80.5778 | 97.4992 | 68.6613 | 61.3602 | 3080 | 79 | 4888 | 2231 | 308 | 13.8055 | |
| eyeh-varpipe | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 47.7195 | 36.5649 | 68.6675 | 29.6562 | 1090 | 1891 | 4370 | 1994 | 1989 | 99.7492 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | het | 80.5000 | 97.2526 | 68.6708 | 63.3133 | 3823 | 108 | 3849 | 1756 | 13 | 0.7403 | |
| ghariani-varprowl | INDEL | I16_PLUS | * | * | 60.9624 | 54.8063 | 68.6764 | 63.4694 | 3495 | 2882 | 3497 | 1595 | 1576 | 98.8088 | |
| anovak-vg | INDEL | I6_15 | HG002complexvar | het | 40.0214 | 28.2378 | 68.6825 | 52.4803 | 665 | 1690 | 954 | 435 | 281 | 64.5977 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 51.6840 | 41.4224 | 68.7044 | 73.6538 | 763 | 1079 | 753 | 343 | 297 | 86.5889 | |
| anovak-vg | INDEL | D16_PLUS | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 57.0334 | 48.7504 | 68.7072 | 56.9745 | 1736 | 1825 | 1706 | 777 | 550 | 70.7851 | |
| gduggal-snapvard | INDEL | C1_5 | HG002complexvar | * | 81.4638 | 100.0000 | 68.7248 | 77.2577 | 7 | 0 | 3072 | 1398 | 373 | 26.6810 | |
| gduggal-snapfb | INDEL | I1_5 | tech_badpromoters | * | 81.4815 | 100.0000 | 68.7500 | 56.1644 | 22 | 0 | 22 | 10 | 0 | 0.0000 | |
| cchapple-custom | INDEL | C6_15 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 0.0000 | 0.0000 | 68.7500 | 96.2963 | 0 | 0 | 11 | 5 | 2 | 40.0000 | |
| gduggal-bwavard | INDEL | D16_PLUS | func_cds | * | 78.5714 | 91.6667 | 68.7500 | 74.1935 | 11 | 1 | 11 | 5 | 1 | 20.0000 | |
| eyeh-varpipe | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 2.7934 | 1.4257 | 68.7500 | 77.7778 | 7 | 484 | 11 | 5 | 3 | 60.0000 | |
| ckim-isaac | INDEL | I16_PLUS | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 67.6923 | 66.6667 | 68.7500 | 71.4286 | 10 | 5 | 11 | 5 | 3 | 60.0000 | |
| egarrison-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 64.0613 | 59.9713 | 68.7500 | 40.2750 | 418 | 279 | 418 | 190 | 185 | 97.3684 | |
| rpoplin-dv42 | INDEL | D6_15 | HG002compoundhet | het | 80.3742 | 96.7290 | 68.7500 | 68.2119 | 828 | 28 | 825 | 375 | 371 | 98.9333 | |
| jpowers-varprowl | INDEL | I6_15 | map_l150_m1_e0 | * | 53.6585 | 44.0000 | 68.7500 | 94.2029 | 11 | 14 | 11 | 5 | 5 | 100.0000 | |
| jpowers-varprowl | INDEL | I6_15 | map_l150_m2_e0 | * | 53.6585 | 44.0000 | 68.7500 | 95.0156 | 11 | 14 | 11 | 5 | 5 | 100.0000 | |
| ciseli-custom | INDEL | I1_5 | map_siren | het | 73.5105 | 78.9411 | 68.7790 | 81.4258 | 1327 | 354 | 1335 | 606 | 517 | 85.3135 | |
| anovak-vg | INDEL | * | map_l100_m0_e0 | homalt | 75.5926 | 83.8900 | 68.7888 | 82.3948 | 427 | 82 | 443 | 201 | 189 | 94.0299 | |
| gduggal-bwavard | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 80.6313 | 97.3607 | 68.8080 | 74.0750 | 46997 | 1274 | 47086 | 21345 | 20055 | 93.9564 | |
| jlack-gatk | INDEL | D16_PLUS | HG002compoundhet | het | 80.6922 | 97.5309 | 68.8119 | 59.1507 | 395 | 10 | 278 | 126 | 121 | 96.0317 | |
| ciseli-custom | INDEL | * | map_l150_m0_e0 | het | 64.8517 | 61.2903 | 68.8525 | 95.2903 | 209 | 132 | 210 | 95 | 45 | 47.3684 | |
| ciseli-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | het | 80.5908 | 97.1532 | 68.8529 | 65.1322 | 2423 | 71 | 2425 | 1097 | 4 | 0.3646 | |
| eyeh-varpipe | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 62.8790 | 57.8527 | 68.8617 | 41.8554 | 7975 | 5810 | 7937 | 3589 | 3504 | 97.6317 | |
| gduggal-snapvard | INDEL | D6_15 | map_l125_m2_e0 | het | 77.5447 | 88.7324 | 68.8623 | 85.9428 | 63 | 8 | 115 | 52 | 35 | 67.3077 | |
| gduggal-snapvard | SNP | tv | map_l250_m2_e0 | het | 80.4626 | 96.7526 | 68.8676 | 92.0365 | 1877 | 63 | 1867 | 844 | 29 | 3.4360 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 67.5632 | 66.2900 | 68.8862 | 64.2887 | 1760 | 895 | 1738 | 785 | 746 | 95.0318 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 67.4740 | 66.1145 | 68.8906 | 60.7168 | 2634 | 1350 | 2726 | 1231 | 537 | 43.6231 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | het | 76.1553 | 85.1190 | 68.8995 | 75.1486 | 143 | 25 | 144 | 65 | 61 | 93.8462 | |
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 74.9889 | 82.2562 | 68.9015 | 82.7699 | 1451 | 313 | 1819 | 821 | 334 | 40.6821 | |
| ghariani-varprowl | SNP | tv | HG002compoundhet | het | 78.1241 | 90.1776 | 68.9129 | 69.5656 | 4214 | 459 | 4336 | 1956 | 10 | 0.5112 | |
| egarrison-hhga | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_51to200 | * | 62.2829 | 56.8163 | 68.9135 | 42.3099 | 671 | 510 | 685 | 309 | 288 | 93.2039 | |
| ckim-gatk | INDEL | * | map_l250_m0_e0 | het | 80.3150 | 96.2264 | 68.9189 | 98.4901 | 51 | 2 | 51 | 23 | 1 | 4.3478 | |
| jpowers-varprowl | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 48.9503 | 37.9479 | 68.9379 | 70.3682 | 699 | 1143 | 688 | 310 | 289 | 93.2258 | |
| ciseli-custom | SNP | tv | map_l250_m0_e0 | * | 63.1004 | 58.1699 | 68.9441 | 95.6122 | 445 | 320 | 444 | 200 | 40 | 20.0000 | |
| jpowers-varprowl | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | het | 77.9999 | 89.7911 | 68.9460 | 55.2115 | 9974 | 1134 | 10002 | 4505 | 4444 | 98.6459 | |
| qzeng-custom | INDEL | I6_15 | func_cds | * | 79.2079 | 93.0233 | 68.9655 | 30.1205 | 40 | 3 | 40 | 18 | 3 | 16.6667 | |
| qzeng-custom | SNP | * | lowcmp_SimpleRepeat_diTR_51to200 | het | 71.4286 | 74.0741 | 68.9655 | 97.9374 | 20 | 7 | 20 | 9 | 1 | 11.1111 | |
| ghariani-varprowl | INDEL | D16_PLUS | map_l100_m0_e0 | * | 70.1754 | 71.4286 | 68.9655 | 98.1611 | 20 | 8 | 20 | 9 | 2 | 22.2222 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 81.6327 | 100.0000 | 68.9655 | 99.9497 | 21 | 0 | 20 | 9 | 9 | 100.0000 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 44.4716 | 32.8160 | 68.9674 | 74.6267 | 1459 | 2987 | 1289 | 580 | 148 | 25.5172 | |
| ghariani-varprowl | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 46.4146 | 34.9744 | 68.9769 | 73.6604 | 2941 | 5468 | 2926 | 1316 | 1208 | 91.7933 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 79.2418 | 93.0939 | 68.9781 | 57.8721 | 337 | 25 | 945 | 425 | 175 | 41.1765 | |
| anovak-vg | SNP | * | map_l250_m0_e0 | * | 72.9992 | 77.5176 | 68.9786 | 95.8110 | 1655 | 480 | 1641 | 738 | 163 | 22.0867 | |
| mlin-fermikit | SNP | * | map_l125_m0_e0 | homalt | 56.5095 | 47.8546 | 68.9863 | 54.6729 | 3212 | 3500 | 3212 | 1444 | 1335 | 92.4515 | |
| gduggal-snapfb | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 81.3544 | 99.1233 | 68.9877 | 64.3634 | 3844 | 34 | 3864 | 1737 | 25 | 1.4393 | |
| ciseli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 72.5469 | 76.4799 | 68.9986 | 69.9494 | 23308 | 7168 | 24351 | 10941 | 4932 | 45.0781 | |