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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
4551-4600 / 86044 show all | |||||||||||||||
| hfeng-pmm3 | SNP | ti | * | * | 99.9596 | 99.9417 | 99.9775 | 17.0194 | 2084295 | 1216 | 2084236 | 469 | 46 | 9.8081 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.4475 | 97.1963 | 97.6999 | 61.5897 | 42120 | 1215 | 41925 | 987 | 925 | 93.7183 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.6448 | 97.1963 | 98.0976 | 61.8032 | 42120 | 1215 | 41922 | 813 | 755 | 92.8659 | |
| ciseli-custom | SNP | ti | map_l250_m1_e0 | het | 63.3134 | 59.0633 | 68.2225 | 93.3005 | 1753 | 1215 | 1754 | 817 | 20 | 2.4480 | |
| egarrison-hhga | INDEL | * | * | homalt | 98.9696 | 99.0301 | 98.9091 | 55.3233 | 123958 | 1214 | 123939 | 1367 | 838 | 61.3021 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 92.9844 | 91.6684 | 94.3387 | 81.8623 | 13357 | 1214 | 13181 | 791 | 134 | 16.9406 | |
| gduggal-bwavard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 92.9844 | 91.6684 | 94.3387 | 81.8623 | 13357 | 1214 | 13181 | 791 | 134 | 16.9406 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 69.0799 | 55.3552 | 91.8541 | 94.6607 | 1504 | 1213 | 1511 | 134 | 31 | 23.1343 | |
| gduggal-snapplat | INDEL | * | map_siren | het | 79.1743 | 73.0923 | 86.3603 | 90.4763 | 3295 | 1213 | 3552 | 561 | 54 | 9.6257 | |
| jli-custom | SNP | * | * | * | 99.9382 | 99.9603 | 99.9160 | 18.2994 | 3053407 | 1212 | 3053302 | 2566 | 212 | 8.2619 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 95.9739 | 92.7447 | 99.4362 | 52.4133 | 15493 | 1212 | 15872 | 90 | 88 | 97.7778 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 95.9739 | 92.7447 | 99.4362 | 52.4133 | 15493 | 1212 | 15872 | 90 | 88 | 97.7778 | |
| egarrison-hhga | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 79.1116 | 70.1992 | 90.6162 | 65.8002 | 2855 | 1212 | 2897 | 300 | 268 | 89.3333 | |
| anovak-vg | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 48.9231 | 45.1335 | 53.4074 | 60.1656 | 997 | 1212 | 1105 | 964 | 732 | 75.9336 | |
| gduggal-snapplat | SNP | tv | map_l150_m2_e0 | * | 92.0132 | 89.3351 | 94.8569 | 86.0094 | 10144 | 1211 | 10144 | 550 | 292 | 53.0909 | |
| qzeng-custom | SNP | tv | map_l150_m1_e0 | homalt | 81.4702 | 69.3107 | 98.8039 | 71.2754 | 2735 | 1211 | 2726 | 33 | 33 | 100.0000 | |
| gduggal-bwaplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 77.7513 | 65.3494 | 95.9630 | 64.1921 | 2282 | 1210 | 2282 | 96 | 29 | 30.2083 | |
| gduggal-bwavard | INDEL | I6_15 | HG002complexvar | hetalt | 0.0000 | 1.0630 | 0.0000 | 0.0000 | 13 | 1210 | 0 | 0 | 0 | ||
| gduggal-snapvard | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 83.2099 | 96.3623 | 73.2167 | 70.3492 | 32026 | 1209 | 47861 | 17508 | 14830 | 84.7041 | |
| gduggal-snapplat | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 50.4391 | 35.8961 | 84.7921 | 83.3242 | 677 | 1209 | 775 | 139 | 23 | 16.5468 | |
| asubramanian-gatk | INDEL | * | HG002complexvar | * | 98.8559 | 98.4299 | 99.2857 | 62.5855 | 75730 | 1208 | 75611 | 544 | 244 | 44.8529 | |
| gduggal-snapfb | SNP | tv | * | het | 98.4503 | 99.7960 | 97.1404 | 29.1063 | 590497 | 1207 | 590839 | 17393 | 571 | 3.2829 | |
| jpowers-varprowl | INDEL | I6_15 | HG002complexvar | hetalt | 0.0000 | 1.3083 | 0.0000 | 0.0000 | 16 | 1207 | 0 | 0 | 0 | ||
| anovak-vg | SNP | tv | map_l100_m2_e1 | het | 80.1681 | 92.4332 | 70.7766 | 74.1911 | 14732 | 1206 | 14718 | 6077 | 1278 | 21.0301 | |
| cchapple-custom | SNP | tv | * | * | 99.7746 | 99.8756 | 99.6738 | 23.8746 | 968484 | 1206 | 967637 | 3167 | 250 | 7.8939 | |
| ltrigg-rtg2 | SNP | * | HG002complexvar | het | 99.8358 | 99.7414 | 99.9305 | 18.3888 | 464296 | 1204 | 464515 | 323 | 94 | 29.1022 | |
| gduggal-snapfb | SNP | * | map_l150_m2_e1 | * | 96.3459 | 96.2620 | 96.4300 | 78.3975 | 31006 | 1204 | 31009 | 1148 | 531 | 46.2544 | |
| ckim-isaac | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | hetalt | 80.7906 | 68.5669 | 98.3181 | 40.6653 | 2622 | 1202 | 2806 | 48 | 41 | 85.4167 | |
| ciseli-custom | INDEL | I6_15 | HG002complexvar | hetalt | 0.0000 | 1.7171 | 0.0000 | 0.0000 | 21 | 1202 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 55.0422 | 49.2827 | 62.3260 | 55.4966 | 1168 | 1202 | 1254 | 758 | 535 | 70.5805 | |
| qzeng-custom | SNP | tv | map_l125_m0_e0 | het | 81.8738 | 72.6880 | 93.7170 | 91.2462 | 3199 | 1202 | 3192 | 214 | 178 | 83.1776 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 0.0000 | 4.0735 | 0.0000 | 0.0000 | 51 | 1201 | 0 | 0 | 0 | ||
| ghariani-varprowl | INDEL | I6_15 | HG002complexvar | hetalt | 0.0000 | 1.7989 | 0.0000 | 0.0000 | 22 | 1201 | 0 | 0 | 0 | ||
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 57.1959 | 83.7351 | 43.4309 | 41.9942 | 6183 | 1201 | 6218 | 8099 | 8063 | 99.5555 | |
| anovak-vg | SNP | tv | map_l100_m2_e0 | het | 80.0810 | 92.3877 | 70.6676 | 74.1753 | 14576 | 1201 | 14566 | 6046 | 1273 | 21.0552 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 97.0619 | 94.5157 | 99.7491 | 65.9214 | 20698 | 1201 | 20677 | 52 | 34 | 65.3846 | |
| ckim-isaac | SNP | tv | HG002compoundhet | het | 84.5719 | 74.3206 | 98.1038 | 53.1755 | 3473 | 1200 | 3725 | 72 | 17 | 23.6111 | |
| gduggal-snapplat | SNP | tv | map_l150_m1_e0 | * | 91.7958 | 89.0029 | 94.7697 | 85.0160 | 9712 | 1200 | 9712 | 536 | 286 | 53.3582 | |
| gduggal-snapfb | SNP | * | map_l150_m2_e0 | * | 96.3250 | 96.2326 | 96.4176 | 78.3427 | 30652 | 1200 | 30655 | 1139 | 529 | 46.4442 | |
| gduggal-bwaplat | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 80.0966 | 67.4532 | 98.5731 | 65.2719 | 2487 | 1200 | 2487 | 36 | 21 | 58.3333 | |
| anovak-vg | INDEL | I6_15 | * | homalt | 61.4755 | 80.7661 | 49.6232 | 33.6435 | 5039 | 1200 | 5202 | 5281 | 4685 | 88.7143 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 40.7441 | 38.0238 | 43.8836 | 68.6231 | 735 | 1198 | 739 | 945 | 935 | 98.9418 | |
| gduggal-bwaplat | INDEL | * | map_l100_m2_e1 | * | 80.6558 | 68.1044 | 98.8790 | 92.5655 | 2558 | 1198 | 2558 | 29 | 11 | 37.9310 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 62.1202 | 49.4937 | 83.3957 | 63.4400 | 1173 | 1197 | 1115 | 222 | 150 | 67.5676 | |
| jli-custom | INDEL | I1_5 | * | * | 99.4941 | 99.2055 | 99.7844 | 57.0293 | 149467 | 1197 | 149502 | 323 | 257 | 79.5666 | |
| cchapple-custom | INDEL | * | HG002complexvar | * | 98.8567 | 98.4455 | 99.2713 | 55.5354 | 75742 | 1196 | 78742 | 578 | 462 | 79.9308 | |
| gduggal-snapplat | INDEL | D6_15 | lowcmp_SimpleRepeat_triTR_11to50 | * | 46.0973 | 30.8671 | 90.9962 | 43.3225 | 534 | 1196 | 475 | 47 | 19 | 40.4255 | |
| gduggal-snapfb | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 88.8708 | 82.4960 | 96.3134 | 28.0265 | 5632 | 1195 | 1672 | 64 | 39 | 60.9375 | |
| gduggal-bwaplat | SNP | ti | map_l250_m2_e1 | homalt | 49.1915 | 32.6185 | 100.0000 | 95.2072 | 578 | 1194 | 577 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 69.8019 | 55.0659 | 95.3064 | 79.2366 | 1462 | 1193 | 1462 | 72 | 30 | 41.6667 | |