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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
78551-78600 / 86044 show all | |||||||||||||||
| ckim-isaac | SNP | ti | map_l100_m0_e0 | het | 78.6364 | 64.9145 | 99.7144 | 71.0617 | 9077 | 4906 | 9078 | 26 | 3 | 11.5385 | |
| ciseli-custom | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 65.1835 | 87.6412 | 51.8876 | 46.8905 | 9077 | 1280 | 9044 | 8386 | 7588 | 90.4841 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 87.1298 | 99.3978 | 77.5574 | 83.2455 | 9078 | 55 | 8484 | 2455 | 50 | 2.0367 | |
| eyeh-varpipe | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 87.1298 | 99.3978 | 77.5574 | 83.2455 | 9078 | 55 | 8484 | 2455 | 50 | 2.0367 | |
| cchapple-custom | SNP | tv | map_l100_m2_e1 | homalt | 98.7868 | 97.6027 | 100.0000 | 60.2358 | 9079 | 223 | 9073 | 0 | 0 | ||
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.8517 | 99.4416 | 98.2688 | 76.2612 | 9082 | 51 | 9082 | 160 | 11 | 6.8750 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.8517 | 99.4416 | 98.2688 | 76.2612 | 9082 | 51 | 9082 | 160 | 11 | 6.8750 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.4197 | 99.4416 | 99.3979 | 75.9193 | 9082 | 51 | 9080 | 55 | 15 | 27.2727 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.4197 | 99.4416 | 99.3979 | 75.9193 | 9082 | 51 | 9080 | 55 | 15 | 27.2727 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.8249 | 99.4525 | 98.2052 | 75.0047 | 9083 | 50 | 9083 | 166 | 10 | 6.0241 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.8249 | 99.4525 | 98.2052 | 75.0047 | 9083 | 50 | 9083 | 166 | 10 | 6.0241 | |
| ckim-isaac | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 92.7880 | 87.7185 | 98.4794 | 33.6241 | 9085 | 1272 | 9067 | 140 | 97 | 69.2857 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 94.1021 | 89.2612 | 99.4983 | 58.0297 | 9085 | 1093 | 9122 | 46 | 12 | 26.0870 | |
| gduggal-bwavard | SNP | tv | map_l100_m2_e1 | homalt | 98.7497 | 97.6672 | 99.8565 | 63.7165 | 9085 | 217 | 9047 | 13 | 11 | 84.6154 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 99.1542 | 99.4744 | 98.8359 | 77.1224 | 9085 | 48 | 9085 | 107 | 10 | 9.3458 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 99.1542 | 99.4744 | 98.8359 | 77.1224 | 9085 | 48 | 9085 | 107 | 10 | 9.3458 | |
| mlin-fermikit | SNP | ti | map_l150_m2_e1 | * | 58.3031 | 43.8450 | 86.9877 | 65.8089 | 9086 | 11637 | 9085 | 1359 | 1198 | 88.1531 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.5311 | 96.0668 | 99.0408 | 42.6732 | 9086 | 372 | 9086 | 88 | 81 | 92.0455 | |
| jlack-gatk | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 91.4681 | 90.2214 | 92.7497 | 68.5930 | 9088 | 985 | 8942 | 699 | 645 | 92.2747 | |
| gduggal-bwafb | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 91.3561 | 86.7685 | 96.4558 | 48.1730 | 9089 | 1386 | 2531 | 93 | 92 | 98.9247 | |
| gduggal-bwavard | SNP | * | HG002compoundhet | homalt | 91.3621 | 84.3072 | 99.7055 | 35.4356 | 9090 | 1692 | 7788 | 23 | 19 | 82.6087 | |
| gduggal-snapvard | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 87.6921 | 93.8506 | 82.2921 | 78.6557 | 9096 | 596 | 8997 | 1936 | 140 | 7.2314 | |
| gduggal-snapplat | INDEL | * | HG002compoundhet | hetalt | 52.0071 | 36.1279 | 92.7918 | 75.2011 | 9097 | 16083 | 9127 | 709 | 591 | 83.3568 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.5921 | 96.2043 | 99.0206 | 42.9077 | 9099 | 359 | 9099 | 90 | 85 | 94.4444 | |
| gduggal-snapplat | INDEL | * | * | hetalt | 51.2002 | 36.0859 | 88.1005 | 81.7746 | 9107 | 16130 | 9151 | 1236 | 915 | 74.0291 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 94.3828 | 89.4773 | 99.8574 | 56.4904 | 9107 | 1071 | 9104 | 13 | 13 | 100.0000 | |
| ghariani-varprowl | SNP | tv | map_l100_m2_e0 | homalt | 99.1079 | 98.8713 | 99.3457 | 66.7718 | 9110 | 104 | 9110 | 60 | 39 | 65.0000 | |
| jpowers-varprowl | SNP | tv | map_l100_m2_e0 | homalt | 99.1460 | 98.9147 | 99.3785 | 68.5946 | 9114 | 100 | 9114 | 57 | 40 | 70.1754 | |
| jlack-gatk | SNP | tv | map_l100_m2_e0 | homalt | 99.4002 | 98.9255 | 99.8795 | 62.7206 | 9115 | 99 | 9115 | 11 | 7 | 63.6364 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.7018 | 96.4052 | 97.0003 | 44.3991 | 9118 | 340 | 9119 | 282 | 276 | 97.8723 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.7868 | 96.4686 | 99.1416 | 42.5996 | 9124 | 334 | 9124 | 79 | 75 | 94.9367 | |
| ltrigg-rtg1 | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.8903 | 96.4792 | 99.3433 | 38.3411 | 9125 | 333 | 9076 | 60 | 45 | 75.0000 | |
| asubramanian-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.9932 | 96.6906 | 97.2976 | 45.4909 | 9145 | 313 | 9145 | 254 | 242 | 95.2756 | |
| astatham-gatk | SNP | tv | map_l100_m2_e0 | homalt | 99.5809 | 99.2728 | 99.8908 | 61.7518 | 9147 | 67 | 9147 | 10 | 6 | 60.0000 | |
| rpoplin-dv42 | SNP | tv | map_l100_m2_e0 | homalt | 99.5649 | 99.3488 | 99.7820 | 64.8909 | 9154 | 60 | 9154 | 20 | 18 | 90.0000 | |
| gduggal-bwafb | SNP | tv | map_l100_m2_e0 | homalt | 99.6083 | 99.3597 | 99.8582 | 65.9435 | 9155 | 59 | 9155 | 13 | 7 | 53.8462 | |
| dgrover-gatk | SNP | tv | map_l100_m2_e0 | homalt | 99.6791 | 99.4465 | 99.9128 | 62.0923 | 9163 | 51 | 9163 | 8 | 5 | 62.5000 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 84.8154 | 82.7107 | 87.0300 | 49.4577 | 9166 | 1916 | 9166 | 1366 | 1354 | 99.1215 | |
| raldana-dualsentieon | INDEL | * | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.2233 | 91.0156 | 95.5407 | 66.1212 | 9168 | 905 | 9020 | 421 | 396 | 94.0618 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 45.9726 | 41.2090 | 51.9814 | 51.1983 | 9169 | 13081 | 9156 | 8458 | 8386 | 99.1487 | |
| ckim-dragen | SNP | tv | map_l100_m2_e0 | homalt | 99.6739 | 99.5116 | 99.8367 | 60.2338 | 9169 | 45 | 9169 | 15 | 13 | 86.6667 | |
| ckim-isaac | SNP | tv | map_l125_m2_e1 | * | 70.9236 | 55.0459 | 99.6739 | 73.8556 | 9169 | 7488 | 9171 | 30 | 9 | 30.0000 | |
| ndellapenna-hhga | SNP | tv | map_l100_m2_e0 | homalt | 99.7609 | 99.6093 | 99.9129 | 63.7805 | 9178 | 36 | 9178 | 8 | 6 | 75.0000 | |
| asubramanian-gatk | SNP | ti | HG002compoundhet | het | 98.1344 | 96.5702 | 99.7500 | 39.9164 | 9179 | 326 | 9177 | 23 | 14 | 60.8696 | |
| anovak-vg | SNP | * | map_l100_m0_e0 | homalt | 87.9850 | 78.9931 | 99.2870 | 62.5031 | 9179 | 2441 | 9052 | 65 | 58 | 89.2308 | |
| jli-custom | SNP | tv | map_l100_m2_e0 | homalt | 99.7826 | 99.6310 | 99.9347 | 60.9754 | 9180 | 34 | 9180 | 6 | 5 | 83.3333 | |
| gduggal-snapplat | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | * | 90.3474 | 85.5479 | 95.7174 | 70.9701 | 9181 | 1551 | 9186 | 411 | 54 | 13.1387 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.6494 | 97.0713 | 98.2344 | 36.6573 | 9181 | 277 | 10015 | 180 | 172 | 95.5556 | |
| ckim-dragen | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.2724 | 97.0924 | 97.4530 | 45.0586 | 9183 | 275 | 9183 | 240 | 235 | 97.9167 | |
| bgallagher-sentieon | SNP | tv | map_l100_m2_e0 | homalt | 99.7827 | 99.6636 | 99.9021 | 61.6697 | 9183 | 31 | 9183 | 9 | 6 | 66.6667 | |