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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
17801-17850 / 86044 show all | |||||||||||||||
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.1094 | 96.1467 | 98.0916 | 47.8953 | 1547 | 62 | 1542 | 30 | 25 | 83.3333 | |
| anovak-vg | SNP | tv | map_l150_m2_e0 | homalt | 87.3307 | 78.0798 | 99.0683 | 73.9018 | 3188 | 895 | 3190 | 30 | 23 | 76.6667 | |
| anovak-vg | SNP | tv | map_l150_m2_e1 | homalt | 87.3530 | 78.1084 | 99.0798 | 73.8866 | 3229 | 905 | 3230 | 30 | 23 | 76.6667 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.9440 | 94.4163 | 99.6108 | 25.7275 | 7643 | 452 | 7678 | 30 | 29 | 96.6667 | |
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.9287 | 94.3839 | 99.6144 | 27.9429 | 7714 | 459 | 7750 | 30 | 29 | 96.6667 | |
| astatham-gatk | INDEL | D1_5 | map_siren | het | 97.1940 | 95.7839 | 98.6462 | 82.2862 | 2181 | 96 | 2186 | 30 | 2 | 6.6667 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 97.6568 | 96.9051 | 98.4202 | 76.2358 | 1910 | 61 | 1869 | 30 | 19 | 63.3333 | |
| jlack-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 97.6568 | 96.9051 | 98.4202 | 76.2358 | 1910 | 61 | 1869 | 30 | 19 | 63.3333 | |
| jlack-gatk | SNP | ti | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 99.0453 | 99.0148 | 99.0758 | 65.2537 | 3216 | 32 | 3216 | 30 | 7 | 23.3333 | |
| jlack-gatk | SNP | ti | map_siren | homalt | 99.6031 | 99.2879 | 99.9204 | 49.0602 | 37646 | 270 | 37640 | 30 | 20 | 66.6667 | |
| hfeng-pmm1 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.6540 | 95.9541 | 99.4153 | 63.0411 | 5099 | 215 | 5101 | 30 | 22 | 73.3333 | |
| hfeng-pmm1 | SNP | * | map_l125_m1_e0 | homalt | 99.8048 | 99.7870 | 99.8225 | 66.5790 | 16869 | 36 | 16869 | 30 | 12 | 40.0000 | |
| hfeng-pmm1 | SNP | * | map_l125_m2_e0 | homalt | 99.8100 | 99.7928 | 99.8273 | 69.0265 | 17339 | 36 | 17339 | 30 | 12 | 40.0000 | |
| hfeng-pmm1 | SNP | * | map_l125_m2_e1 | homalt | 99.8117 | 99.7947 | 99.8288 | 69.0610 | 17496 | 36 | 17496 | 30 | 12 | 40.0000 | |
| hfeng-pmm2 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 89.1599 | 90.8840 | 87.5000 | 82.4945 | 329 | 33 | 210 | 30 | 30 | 100.0000 | |
| hfeng-pmm2 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.2915 | 97.2540 | 93.4066 | 47.6410 | 425 | 12 | 425 | 30 | 30 | 100.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 93.8776 | 89.9023 | 98.2206 | 65.9944 | 1656 | 186 | 1656 | 30 | 21 | 70.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2559 | 99.3087 | 99.2032 | 69.9329 | 3735 | 26 | 3735 | 30 | 29 | 96.6667 | |
| hfeng-pmm2 | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.2559 | 99.3087 | 99.2032 | 69.9329 | 3735 | 26 | 3735 | 30 | 29 | 96.6667 | |
| hfeng-pmm2 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.8008 | 96.2364 | 99.4170 | 63.5191 | 5114 | 200 | 5116 | 30 | 22 | 73.3333 | |
| hfeng-pmm3 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 94.9381 | 96.5675 | 93.3628 | 47.1345 | 422 | 15 | 422 | 30 | 30 | 100.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | HG002complexvar | homalt | 98.6971 | 99.8353 | 97.5845 | 54.9183 | 1212 | 2 | 1212 | 30 | 30 | 100.0000 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.0322 | 99.6364 | 96.4789 | 69.7121 | 822 | 3 | 822 | 30 | 29 | 96.6667 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.0322 | 99.6364 | 96.4789 | 69.7121 | 822 | 3 | 822 | 30 | 29 | 96.6667 | |
| hfeng-pmm3 | SNP | tv | * | homalt | 99.9887 | 99.9854 | 99.9920 | 20.6594 | 377068 | 55 | 377060 | 30 | 18 | 60.0000 | |
| hfeng-pmm3 | SNP | tv | map_l250_m2_e0 | * | 98.7483 | 98.5427 | 98.9547 | 88.3900 | 2840 | 42 | 2840 | 30 | 4 | 13.3333 | |
| hfeng-pmm3 | SNP | tv | map_l250_m2_e1 | * | 98.7629 | 98.5597 | 98.9669 | 88.4625 | 2874 | 42 | 2874 | 30 | 4 | 13.3333 | |
| jlack-gatk | INDEL | D16_PLUS | HG002complexvar | het | 97.0657 | 97.5610 | 96.5753 | 68.6359 | 1080 | 27 | 846 | 30 | 18 | 60.0000 | |
| hfeng-pmm2 | SNP | ti | map_siren | homalt | 99.9103 | 99.8998 | 99.9208 | 52.1071 | 37878 | 38 | 37872 | 30 | 20 | 66.6667 | |
| hfeng-pmm3 | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 96.8189 | 94.9153 | 98.8005 | 65.6974 | 2520 | 135 | 2471 | 30 | 22 | 73.3333 | |
| hfeng-pmm3 | INDEL | D1_5 | HG002complexvar | * | 99.2121 | 98.5267 | 99.9072 | 56.6840 | 32233 | 482 | 32285 | 30 | 19 | 63.3333 | |
| ltrigg-rtg1 | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 97.7403 | 96.1234 | 99.4126 | 61.0480 | 5108 | 206 | 5077 | 30 | 17 | 56.6667 | |
| ltrigg-rtg1 | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 99.3904 | 99.2623 | 99.5188 | 66.4857 | 6190 | 46 | 6205 | 30 | 5 | 16.6667 | |
| ltrigg-rtg1 | SNP | ti | map_l150_m2_e1 | het | 98.4983 | 97.2647 | 99.7636 | 66.7853 | 12659 | 356 | 12661 | 30 | 5 | 16.6667 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 98.5596 | 97.4138 | 99.7327 | 50.5529 | 11187 | 297 | 11193 | 30 | 28 | 93.3333 | |
| jli-custom | INDEL | D6_15 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.1609 | 99.8464 | 98.4848 | 39.5973 | 1950 | 3 | 1950 | 30 | 30 | 100.0000 | |
| jli-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 97.1797 | 95.6882 | 98.7185 | 59.2515 | 2308 | 104 | 2311 | 30 | 19 | 63.3333 | |
| ltrigg-rtg1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 95.5301 | 93.6306 | 97.5083 | 72.4674 | 1176 | 80 | 1174 | 30 | 1 | 3.3333 | |
| jpowers-varprowl | INDEL | * | map_l150_m0_e0 | * | 92.9134 | 91.8288 | 94.0239 | 93.2052 | 472 | 42 | 472 | 30 | 20 | 66.6667 | |
| jmaeng-gatk | INDEL | * | map_l250_m1_e0 | het | 90.5473 | 95.7895 | 85.8491 | 97.7177 | 182 | 8 | 182 | 30 | 2 | 6.6667 | |
| jmaeng-gatk | INDEL | * | map_l250_m2_e0 | het | 91.4027 | 96.1905 | 87.0690 | 97.8055 | 202 | 8 | 202 | 30 | 2 | 6.6667 | |
| jmaeng-gatk | INDEL | * | map_l250_m2_e1 | het | 91.4414 | 96.2085 | 87.1245 | 97.8577 | 203 | 8 | 203 | 30 | 2 | 6.6667 | |
| jmaeng-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 96.7542 | 99.0148 | 94.5946 | 84.0288 | 603 | 6 | 525 | 30 | 27 | 90.0000 | |
| jmaeng-gatk | INDEL | D1_5 | map_l150_m0_e0 | * | 94.0364 | 97.9239 | 90.4459 | 94.1809 | 283 | 6 | 284 | 30 | 1 | 3.3333 | |
| jmaeng-gatk | INDEL | I1_5 | HG002complexvar | het | 99.6695 | 99.5052 | 99.8344 | 58.2792 | 18099 | 90 | 18081 | 30 | 14 | 46.6667 | |
| jmaeng-gatk | INDEL | I1_5 | HG002complexvar | homalt | 99.8366 | 99.8959 | 99.7773 | 52.9712 | 13434 | 14 | 13440 | 30 | 28 | 93.3333 | |
| jmaeng-gatk | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | homalt | 97.1991 | 98.9214 | 95.5357 | 68.5540 | 642 | 7 | 642 | 30 | 30 | 100.0000 | |
| jmaeng-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | homalt | 95.3988 | 100.0000 | 91.2023 | 70.8298 | 311 | 0 | 311 | 30 | 29 | 96.6667 | |
| ltrigg-rtg1 | INDEL | D16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.6583 | 87.5470 | 98.4034 | 64.1001 | 1863 | 265 | 1849 | 30 | 27 | 90.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 93.4345 | 88.7599 | 98.6289 | 56.3012 | 2140 | 271 | 2158 | 30 | 18 | 60.0000 | |