PrecisionFDA
Truth Challenge
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Explore HG002 comparison results
Use this interactive explorer to filter all results across submission entries and multiple dimensions.
| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
75901-75950 / 86044 show all | |||||||||||||||
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.7774 | 98.9308 | 96.6505 | 72.2034 | 28405 | 307 | 28740 | 996 | 22 | 2.2088 | |
| ltrigg-rtg1 | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.7774 | 98.9308 | 96.6505 | 72.2034 | 28405 | 307 | 28740 | 996 | 22 | 2.2088 | |
| jpowers-varprowl | INDEL | D6_15 | HG002complexvar | het | 82.3223 | 90.1603 | 75.7381 | 57.2412 | 2813 | 307 | 2822 | 904 | 873 | 96.5708 | |
| jli-custom | SNP | * | map_l100_m0_e0 | het | 98.8927 | 98.5522 | 99.2355 | 65.8743 | 20898 | 307 | 20898 | 161 | 48 | 29.8137 | |
| gduggal-bwaplat | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | hetalt | 67.6379 | 51.4241 | 98.7842 | 56.3081 | 325 | 307 | 325 | 4 | 4 | 100.0000 | |
| gduggal-bwaplat | SNP | ti | map_l250_m0_e0 | homalt | 45.6637 | 29.5872 | 100.0000 | 97.2939 | 129 | 307 | 129 | 0 | 0 | ||
| gduggal-bwafb | SNP | ti | map_l100_m2_e0 | het | 98.8152 | 98.9975 | 98.6336 | 70.5993 | 30315 | 307 | 30317 | 420 | 95 | 22.6190 | |
| gduggal-bwafb | SNP | ti | map_l100_m2_e1 | het | 98.8201 | 99.0084 | 98.6326 | 70.6269 | 30653 | 307 | 30655 | 425 | 95 | 22.3529 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 97.3380 | 94.8299 | 99.9823 | 61.6765 | 5631 | 307 | 5659 | 1 | 1 | 100.0000 | |
| ckim-isaac | INDEL | * | map_l150_m1_e0 | het | 77.5665 | 64.0936 | 98.2111 | 92.0336 | 548 | 307 | 549 | 10 | 4 | 40.0000 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.6351 | 98.9928 | 98.2801 | 74.5158 | 30173 | 307 | 29714 | 520 | 391 | 75.1923 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.6351 | 98.9928 | 98.2801 | 74.5158 | 30173 | 307 | 29714 | 520 | 391 | 75.1923 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 98.3167 | 98.0869 | 98.5475 | 60.4971 | 15740 | 307 | 15741 | 232 | 216 | 93.1034 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.8701 | 99.3283 | 98.4162 | 75.2675 | 45395 | 307 | 45425 | 731 | 60 | 8.2079 | |
| cchapple-custom | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.8701 | 99.3283 | 98.4162 | 75.2675 | 45395 | 307 | 45425 | 731 | 60 | 8.2079 | |
| ciseli-custom | INDEL | * | map_l125_m2_e0 | homalt | 67.2566 | 59.7641 | 76.8971 | 88.5455 | 456 | 307 | 456 | 137 | 107 | 78.1022 | |
| gduggal-snapvard | SNP | tv | map_l100_m2_e1 | homalt | 98.2305 | 96.6996 | 99.8105 | 63.7425 | 8995 | 307 | 8956 | 17 | 11 | 64.7059 | |
| dgrover-gatk | SNP | * | * | homalt | 99.9839 | 99.9740 | 99.9938 | 17.2643 | 1179854 | 307 | 1179830 | 73 | 63 | 86.3014 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_51to200 | * | 64.8218 | 55.9541 | 77.0297 | 55.2305 | 390 | 307 | 389 | 116 | 108 | 93.1034 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.7289 | 88.8607 | 96.9493 | 47.5369 | 2449 | 307 | 2447 | 77 | 75 | 97.4026 | |
| hfeng-pmm1 | SNP | ti | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 99.4265 | 98.9020 | 99.9566 | 52.6521 | 27652 | 307 | 27651 | 12 | 3 | 25.0000 | |
| ltrigg-rtg2 | INDEL | I1_5 | HG002complexvar | * | 99.3818 | 99.0798 | 99.6856 | 52.9504 | 33055 | 307 | 32342 | 102 | 66 | 64.7059 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 87.8760 | 79.8693 | 97.6669 | 68.5714 | 1222 | 308 | 1214 | 29 | 21 | 72.4138 | |
| ltrigg-rtg2 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 87.8760 | 79.8693 | 97.6669 | 68.5714 | 1222 | 308 | 1214 | 29 | 21 | 72.4138 | |
| raldana-dualsentieon | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 93.1260 | 92.3762 | 93.8881 | 76.4157 | 3732 | 308 | 3441 | 224 | 202 | 90.1786 | |
| qzeng-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 94.3405 | 95.3885 | 93.3153 | 37.1067 | 6371 | 308 | 12759 | 914 | 716 | 78.3370 | |
| mlin-fermikit | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 86.9863 | 88.6640 | 85.3710 | 87.2287 | 2409 | 308 | 2416 | 414 | 264 | 63.7681 | |
| gduggal-snapvard | INDEL | I16_PLUS | HG002complexvar | homalt | 0.6437 | 0.3236 | 59.0909 | 48.8372 | 1 | 308 | 13 | 9 | 6 | 66.6667 | |
| gduggal-snapplat | INDEL | * | map_l100_m2_e1 | homalt | 84.9123 | 75.9563 | 96.2625 | 87.8918 | 973 | 308 | 1056 | 41 | 2 | 4.8781 | |
| gduggal-bwaplat | INDEL | D1_5 | map_l150_m1_e0 | * | 72.3894 | 57.0432 | 99.0315 | 95.5984 | 409 | 308 | 409 | 4 | 1 | 25.0000 | |
| gduggal-bwavard | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 24.8175 | 14.2061 | 98.0769 | 63.8889 | 51 | 308 | 51 | 1 | 1 | 100.0000 | |
| gduggal-bwavard | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | hetalt | 0.0000 | 2.5316 | 0.0000 | 0.0000 | 8 | 308 | 0 | 0 | 0 | ||
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.5098 | 95.4885 | 99.6185 | 24.8854 | 6519 | 308 | 6528 | 25 | 24 | 96.0000 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 0.0000 | 95.4885 | 0.0000 | 0.0000 | 6519 | 308 | 0 | 0 | 0 | ||
| egarrison-hhga | INDEL | * | HG002complexvar | homalt | 98.5044 | 98.8604 | 98.1509 | 53.6323 | 26719 | 308 | 26700 | 503 | 354 | 70.3777 | |
| egarrison-hhga | SNP | ti | map_l100_m1_e0 | het | 99.3929 | 98.9713 | 99.8181 | 63.9434 | 29634 | 308 | 29635 | 54 | 18 | 33.3333 | |
| ckim-isaac | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 95.1611 | 91.0564 | 99.6533 | 48.4903 | 3146 | 309 | 3162 | 11 | 5 | 45.4545 | |
| ckim-isaac | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 80.5197 | 68.3077 | 98.0488 | 51.2195 | 666 | 309 | 804 | 16 | 13 | 81.2500 | |
| asubramanian-gatk | SNP | tv | HG002compoundhet | * | 98.0032 | 96.5370 | 99.5145 | 49.4980 | 8614 | 309 | 8609 | 42 | 11 | 26.1905 | |
| anovak-vg | SNP | ti | map_l250_m0_e0 | * | 72.4774 | 77.4453 | 68.1085 | 95.7045 | 1061 | 309 | 1055 | 494 | 111 | 22.4696 | |
| gduggal-snapvard | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 53.8464 | 67.1975 | 44.9213 | 37.7402 | 633 | 309 | 2198 | 2695 | 2403 | 89.1651 | |
| gduggal-snapvard | SNP | ti | segdup | het | 98.2336 | 97.4314 | 99.0491 | 94.0407 | 11721 | 309 | 11666 | 112 | 14 | 12.5000 | |
| gduggal-snapvard | INDEL | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 78.7482 | 91.5528 | 69.0859 | 44.8186 | 3349 | 309 | 5978 | 2675 | 2192 | 81.9439 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | homalt | 23.5294 | 13.9276 | 75.7576 | 73.7052 | 50 | 309 | 50 | 16 | 14 | 87.5000 | |
| gduggal-snapplat | INDEL | I16_PLUS | HG002complexvar | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 309 | 0 | 0 | 0 | |||
| ghariani-varprowl | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 0.0000 | 1.2780 | 0.0000 | 0.0000 | 4 | 309 | 0 | 0 | 0 | ||
| gduggal-snapfb | INDEL | I16_PLUS | HG002complexvar | homalt | 0.0000 | 0.0000 | 0.0000 | 0 | 309 | 0 | 0 | 0 | |||
| ltrigg-rtg2 | SNP | tv | map_l125_m1_e0 | * | 98.9355 | 98.0707 | 99.8157 | 58.1812 | 15707 | 309 | 15707 | 29 | 5 | 17.2414 | |
| ltrigg-rtg2 | SNP | tv | map_l125_m2_e0 | * | 98.9542 | 98.1260 | 99.7965 | 61.0321 | 16180 | 309 | 16180 | 33 | 5 | 15.1515 | |
| ltrigg-rtg2 | SNP | tv | map_l125_m2_e1 | * | 98.9559 | 98.1449 | 99.7803 | 61.1285 | 16348 | 309 | 16353 | 36 | 5 | 13.8889 | |