PrecisionFDA
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Explore HG002 comparison results
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| Entry | Type | Subtype | Subset | Genotype | F-score | Recall | Precision | Frac_NA | Truth TP | Truth FN | Query TP | Query FP | FP gt | % FP ma | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
5551-5600 / 86044 show all | |||||||||||||||
| jmaeng-gatk | SNP | ti | map_l150_m1_e0 | * | 80.4694 | 68.3289 | 97.8561 | 87.7017 | 13469 | 6243 | 13465 | 295 | 34 | 11.5254 | |
| ckim-gatk | SNP | ti | map_l150_m1_e0 | * | 80.5127 | 68.3289 | 97.9843 | 87.5524 | 13469 | 6243 | 13465 | 277 | 34 | 12.2744 | |
| mlin-fermikit | SNP | * | map_l125_m2_e1 | het | 62.1228 | 45.4352 | 98.1839 | 65.4086 | 13467 | 16173 | 13462 | 249 | 8 | 3.2129 | |
| ckim-gatk | SNP | ti | map_l100_m2_e0 | homalt | 84.7018 | 73.4994 | 99.9332 | 67.2925 | 13457 | 4852 | 13457 | 9 | 7 | 77.7778 | |
| ghariani-varprowl | SNP | * | HG002compoundhet | het | 84.6682 | 93.2007 | 77.5669 | 61.4559 | 13214 | 964 | 13447 | 3889 | 29 | 0.7457 | |
| eyeh-varpipe | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 67.3074 | 57.8428 | 80.4752 | 45.6223 | 4864 | 3545 | 13445 | 3262 | 3175 | 97.3329 | |
| dgrover-gatk | INDEL | I1_5 | HG002complexvar | homalt | 99.8663 | 99.9256 | 99.8070 | 53.0009 | 13438 | 10 | 13443 | 26 | 25 | 96.1538 | |
| bgallagher-sentieon | INDEL | I1_5 | HG002complexvar | homalt | 99.8440 | 99.9256 | 99.7625 | 52.9997 | 13438 | 10 | 13443 | 32 | 31 | 96.8750 | |
| astatham-gatk | INDEL | I1_5 | HG002complexvar | homalt | 99.8625 | 99.9182 | 99.8069 | 52.9404 | 13437 | 11 | 13442 | 26 | 26 | 100.0000 | |
| ckim-gatk | INDEL | I1_5 | HG002complexvar | homalt | 99.8588 | 99.9033 | 99.8143 | 52.9260 | 13435 | 13 | 13441 | 25 | 24 | 96.0000 | |
| jli-custom | INDEL | I1_5 | HG002complexvar | homalt | 99.8996 | 99.9182 | 99.8811 | 52.2818 | 13437 | 11 | 13441 | 16 | 14 | 87.5000 | |
| jmaeng-gatk | INDEL | I1_5 | HG002complexvar | homalt | 99.8366 | 99.8959 | 99.7773 | 52.9712 | 13434 | 14 | 13440 | 30 | 28 | 93.3333 | |
| raldana-dualsentieon | INDEL | I1_5 | HG002complexvar | homalt | 99.8477 | 99.8959 | 99.7995 | 52.5914 | 13434 | 14 | 13438 | 27 | 27 | 100.0000 | |
| ckim-vqsr | INDEL | I1_5 | HG002complexvar | homalt | 99.8514 | 99.8810 | 99.8217 | 52.9334 | 13432 | 16 | 13438 | 24 | 24 | 100.0000 | |
| hfeng-pmm2 | INDEL | I1_5 | HG002complexvar | homalt | 99.8477 | 99.8885 | 99.8069 | 52.0702 | 13433 | 15 | 13437 | 26 | 25 | 96.1538 | |
| hfeng-pmm3 | INDEL | I1_5 | HG002complexvar | homalt | 99.8699 | 99.8736 | 99.8662 | 51.8330 | 13431 | 17 | 13436 | 18 | 16 | 88.8889 | |
| hfeng-pmm1 | INDEL | I1_5 | HG002complexvar | homalt | 99.8625 | 99.8736 | 99.8514 | 52.0252 | 13431 | 17 | 13435 | 20 | 17 | 85.0000 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.8950 | 94.3201 | 99.6144 | 34.3188 | 13235 | 797 | 13433 | 52 | 50 | 96.1538 | |
| jlack-gatk | INDEL | I1_5 | HG002complexvar | homalt | 99.7623 | 99.8364 | 99.6883 | 53.0964 | 13426 | 22 | 13432 | 42 | 40 | 95.2381 | |
| mlin-fermikit | SNP | tv | map_siren | homalt | 81.9952 | 77.9060 | 86.5373 | 48.2163 | 13431 | 3809 | 13428 | 2089 | 1999 | 95.6917 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.3287 | 97.7902 | 98.8731 | 68.6335 | 13453 | 304 | 13424 | 153 | 111 | 72.5490 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.3287 | 97.7902 | 98.8731 | 68.6335 | 13453 | 304 | 13424 | 153 | 111 | 72.5490 | |
| jpowers-varprowl | SNP | ti | map_l100_m0_e0 | het | 96.5732 | 95.9308 | 97.2242 | 76.0435 | 13414 | 569 | 13415 | 383 | 137 | 35.7702 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 98.0316 | 97.6012 | 98.4657 | 62.5780 | 13427 | 330 | 13413 | 209 | 47 | 22.4880 | |
| ltrigg-rtg2 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 98.0316 | 97.6012 | 98.4657 | 62.5780 | 13427 | 330 | 13413 | 209 | 47 | 22.4880 | |
| jli-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.9293 | 97.2651 | 98.6025 | 47.2860 | 13408 | 377 | 13406 | 190 | 185 | 97.3684 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.7892 | 94.1206 | 99.6136 | 34.1069 | 13207 | 825 | 13406 | 52 | 51 | 98.0769 | |
| ckim-isaac | SNP | * | map_l100_m0_e0 | het | 77.3393 | 63.1643 | 99.7172 | 71.7888 | 13394 | 7811 | 13397 | 38 | 6 | 15.7895 | |
| ckim-dragen | INDEL | I1_5 | HG002complexvar | homalt | 99.7432 | 99.8141 | 99.6725 | 52.7072 | 13423 | 25 | 13390 | 44 | 44 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | HG002complexvar | homalt | 99.6538 | 99.5092 | 99.7987 | 52.7938 | 13382 | 66 | 13389 | 27 | 26 | 96.2963 | |
| rpoplin-dv42 | INDEL | I1_5 | HG002complexvar | homalt | 99.7169 | 99.5464 | 99.8881 | 51.4705 | 13387 | 61 | 13384 | 15 | 14 | 93.3333 | |
| gduggal-bwafb | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 92.3938 | 89.4378 | 95.5519 | 45.2869 | 12329 | 1456 | 13383 | 623 | 612 | 98.2343 | |
| ltrigg-rtg2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 97.5565 | 95.7135 | 99.4720 | 43.1314 | 13174 | 590 | 13375 | 71 | 70 | 98.5915 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 72.2252 | 97.0052 | 57.5294 | 65.0968 | 13345 | 412 | 13375 | 9874 | 9432 | 95.5236 | |
| ghariani-varprowl | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 72.2252 | 97.0052 | 57.5294 | 65.0968 | 13345 | 412 | 13375 | 9874 | 9432 | 95.5236 | |
| jmaeng-gatk | SNP | tv | map_l100_m1_e0 | het | 91.2990 | 86.7484 | 96.3534 | 83.6231 | 13374 | 2043 | 13370 | 506 | 14 | 2.7668 | |
| dgrover-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.3211 | 96.9895 | 97.6551 | 52.0760 | 13370 | 415 | 13368 | 321 | 314 | 97.8193 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.2554 | 96.9169 | 97.5963 | 51.8216 | 13360 | 425 | 13358 | 329 | 322 | 97.8723 | |
| ckim-gatk | SNP | tv | map_l100_m1_e0 | het | 91.3400 | 86.6511 | 96.5654 | 83.3110 | 13359 | 2058 | 13355 | 475 | 16 | 3.3684 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | * | 90.1072 | 85.9151 | 94.7294 | 66.7970 | 13383 | 2194 | 13354 | 743 | 724 | 97.4428 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 80.0676 | 74.4893 | 86.5491 | 57.6750 | 13163 | 4508 | 13345 | 2074 | 1774 | 85.5352 | |
| ndellapenna-hhga | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 80.0676 | 74.4893 | 86.5491 | 57.6750 | 13163 | 4508 | 13345 | 2074 | 1774 | 85.5352 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 64.3466 | 65.7191 | 63.0303 | 66.4559 | 10565 | 5511 | 13341 | 7825 | 6132 | 78.3642 | |
| gduggal-snapvard | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 64.3466 | 65.7191 | 63.0303 | 66.4559 | 10565 | 5511 | 13341 | 7825 | 6132 | 78.3642 | |
| gduggal-snapvard | SNP | ti | map_l100_m0_e0 | het | 90.6971 | 96.0523 | 85.9075 | 80.2123 | 13431 | 552 | 13338 | 2188 | 175 | 7.9982 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.7231 | 93.7001 | 99.9475 | 34.6971 | 13148 | 884 | 13337 | 7 | 6 | 85.7143 | |
| ckim-gatk | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.1837 | 96.7573 | 97.6138 | 51.8740 | 13338 | 447 | 13336 | 326 | 319 | 97.8528 | |
| hfeng-pmm1 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.6962 | 93.6431 | 99.9550 | 34.4875 | 13140 | 892 | 13333 | 6 | 5 | 83.3333 | |
| ckim-vqsr | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 97.1679 | 96.6993 | 97.6410 | 51.8960 | 13330 | 455 | 13328 | 322 | 315 | 97.8261 | |
| egarrison-hhga | INDEL | I1_5 | HG002complexvar | homalt | 99.1848 | 99.1225 | 99.2472 | 49.0370 | 13330 | 118 | 13315 | 101 | 64 | 63.3663 | |