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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
5251-5300 / 86044 show all | |||||||||||||||
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.4073 | 99.5608 | 99.2542 | 75.3973 | 14507 | 64 | 14507 | 109 | 12 | 11.0092 | |
| dgrover-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.4073 | 99.5608 | 99.2542 | 75.3973 | 14507 | 64 | 14507 | 109 | 12 | 11.0092 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.1964 | 99.5470 | 98.8483 | 74.0177 | 14505 | 66 | 14505 | 169 | 12 | 7.1006 | |
| jli-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.1964 | 99.5470 | 98.8483 | 74.0177 | 14505 | 66 | 14505 | 169 | 12 | 7.1006 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.5504 | 99.5402 | 99.5606 | 75.8969 | 14504 | 67 | 14502 | 64 | 17 | 26.5625 | |
| rpoplin-dv42 | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.5504 | 99.5402 | 99.5606 | 75.8969 | 14504 | 67 | 14502 | 64 | 17 | 26.5625 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.9925 | 98.5647 | 99.4241 | 53.5139 | 14558 | 212 | 14501 | 84 | 48 | 57.1429 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 99.1996 | 99.5127 | 98.8884 | 74.7272 | 14500 | 71 | 14500 | 163 | 14 | 8.5890 | |
| bgallagher-sentieon | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 99.1996 | 99.5127 | 98.8884 | 74.7272 | 14500 | 71 | 14500 | 163 | 14 | 8.5890 | |
| mlin-fermikit | INDEL | D1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | het | 98.6655 | 98.1110 | 99.2262 | 52.5551 | 14491 | 279 | 14491 | 113 | 109 | 96.4602 | |
| ghariani-varprowl | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 73.9195 | 72.9786 | 74.8850 | 67.4004 | 14495 | 5367 | 14485 | 4858 | 4633 | 95.3685 | |
| cchapple-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.9091 | 95.9594 | 97.8778 | 43.6515 | 13228 | 557 | 14482 | 314 | 297 | 94.5860 | |
| mlin-fermikit | INDEL | * | lowcmp_SimpleRepeat_diTR_11to50 | het | 89.4933 | 92.7475 | 86.4597 | 53.2254 | 14617 | 1143 | 14482 | 2268 | 2204 | 97.1781 | |
| cchapple-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.3555 | 99.2863 | 97.4421 | 79.1072 | 14467 | 104 | 14476 | 380 | 19 | 5.0000 | |
| cchapple-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.3555 | 99.2863 | 97.4421 | 79.1072 | 14467 | 104 | 14476 | 380 | 19 | 5.0000 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.8898 | 99.3274 | 96.4931 | 80.2111 | 14473 | 98 | 14473 | 526 | 28 | 5.3232 | |
| jlack-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.8898 | 99.3274 | 96.4931 | 80.2111 | 14473 | 98 | 14473 | 526 | 28 | 5.3232 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.8791 | 99.2863 | 98.4753 | 80.3955 | 14467 | 104 | 14467 | 224 | 14 | 6.2500 | |
| ckim-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.8791 | 99.2863 | 98.4753 | 80.3955 | 14467 | 104 | 14467 | 224 | 14 | 6.2500 | |
| jmaeng-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 96.2177 | 93.0272 | 99.6348 | 58.3838 | 14342 | 1075 | 14459 | 53 | 52 | 98.1132 | |
| qzeng-custom | SNP | ti | map_l100_m2_e1 | homalt | 88.0999 | 79.0797 | 99.4428 | 59.4081 | 14625 | 3869 | 14457 | 81 | 75 | 92.5926 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 91.8804 | 85.1605 | 99.7515 | 76.4930 | 14456 | 2519 | 14453 | 36 | 32 | 88.8889 | |
| gduggal-bwaplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 91.8804 | 85.1605 | 99.7515 | 76.4930 | 14456 | 2519 | 14453 | 36 | 32 | 88.8889 | |
| ckim-gatk | SNP | * | map_l150_m1_e0 | het | 84.3543 | 74.8499 | 96.6237 | 89.7210 | 14458 | 4858 | 14452 | 505 | 40 | 7.9208 | |
| jmaeng-gatk | SNP | * | map_l150_m1_e0 | het | 84.2606 | 74.8343 | 96.4038 | 89.9614 | 14455 | 4861 | 14449 | 539 | 39 | 7.2356 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.6852 | 99.1559 | 98.2189 | 80.5400 | 14448 | 123 | 14448 | 262 | 15 | 5.7252 | |
| jmaeng-gatk | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.6852 | 99.1559 | 98.2189 | 80.5400 | 14448 | 123 | 14448 | 262 | 15 | 5.7252 | |
| ckim-vqsr | SNP | * | map_l100_m0_e0 | het | 80.5244 | 68.0594 | 98.5791 | 88.0545 | 14432 | 6773 | 14431 | 208 | 2 | 0.9615 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 81.2103 | 79.4781 | 83.0196 | 65.6096 | 14438 | 3728 | 14423 | 2950 | 2467 | 83.6271 | |
| gduggal-snapfb | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 81.2103 | 79.4781 | 83.0196 | 65.6096 | 14438 | 3728 | 14423 | 2950 | 2467 | 83.6271 | |
| gduggal-snapvard | INDEL | D6_15 | * | het | 75.6496 | 85.7660 | 67.6679 | 49.6050 | 9942 | 1650 | 14418 | 6889 | 5530 | 80.2729 | |
| anovak-vg | SNP | tv | map_l125_m2_e0 | * | 80.8739 | 87.5311 | 75.1578 | 76.3071 | 14433 | 2056 | 14410 | 4763 | 1075 | 22.5698 | |
| qzeng-custom | SNP | * | map_l150_m2_e1 | het | 81.7356 | 71.3795 | 95.6069 | 89.7988 | 14535 | 5828 | 14407 | 662 | 554 | 83.6858 | |
| mlin-fermikit | SNP | ti | map_l125_m1_e0 | * | 63.1485 | 49.0745 | 88.5410 | 56.6927 | 14396 | 14939 | 14395 | 1863 | 1654 | 88.7815 | |
| anovak-vg | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 54.5816 | 47.5637 | 64.0290 | 69.1270 | 7409 | 8168 | 14395 | 8087 | 6755 | 83.5291 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 98.0152 | 97.3690 | 98.6701 | 49.3437 | 14396 | 389 | 14394 | 194 | 186 | 95.8763 | |
| ckim-gatk | SNP | ti | map_l150_m2_e1 | * | 81.3077 | 69.4784 | 97.9917 | 88.2788 | 14398 | 6325 | 14394 | 295 | 35 | 11.8644 | |
| jmaeng-gatk | SNP | ti | map_l150_m2_e1 | * | 81.2473 | 69.4542 | 97.8644 | 88.4201 | 14393 | 6330 | 14389 | 314 | 34 | 10.8280 | |
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.9850 | 98.7098 | 99.2618 | 74.4815 | 14383 | 188 | 14387 | 107 | 31 | 28.9720 | |
| egarrison-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.9850 | 98.7098 | 99.2618 | 74.4815 | 14383 | 188 | 14387 | 107 | 31 | 28.9720 | |
| jlack-gatk | INDEL | * | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 95.9102 | 92.5212 | 99.5569 | 59.5559 | 14264 | 1153 | 14381 | 64 | 58 | 90.6250 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 86.5865 | 98.1950 | 77.4326 | 84.5229 | 14308 | 263 | 14380 | 4191 | 196 | 4.6767 | |
| ghariani-varprowl | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 86.5865 | 98.1950 | 77.4326 | 84.5229 | 14308 | 263 | 14380 | 4191 | 196 | 4.6767 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.9598 | 98.5931 | 99.3293 | 80.6409 | 14366 | 205 | 14366 | 97 | 14 | 14.4330 | |
| ckim-vqsr | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 98.9598 | 98.5931 | 99.3293 | 80.6409 | 14366 | 205 | 14366 | 97 | 14 | 14.4330 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 97.2810 | 98.6274 | 95.9709 | 85.0094 | 14371 | 200 | 14363 | 603 | 45 | 7.4627 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 97.2810 | 98.6274 | 95.9709 | 85.0094 | 14371 | 200 | 14363 | 603 | 45 | 7.4627 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.4585 | 97.1390 | 97.7802 | 53.9739 | 14362 | 423 | 14360 | 326 | 315 | 96.6258 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 97.3971 | 97.0646 | 97.7319 | 53.7356 | 14351 | 434 | 14349 | 333 | 323 | 96.9970 | |
| ndellapenna-hhga | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 98.7167 | 98.4558 | 98.9789 | 74.5335 | 14346 | 225 | 14346 | 148 | 46 | 31.0811 | |