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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
78101-78150 / 86044 show all | |||||||||||||||
| astatham-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0563 | 99.8206 | 98.3037 | 63.5993 | 8345 | 15 | 8345 | 144 | 142 | 98.6111 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.0447 | 99.8325 | 98.2692 | 63.7593 | 8346 | 14 | 8346 | 147 | 145 | 98.6395 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.0447 | 99.8325 | 98.2692 | 63.7593 | 8346 | 14 | 8346 | 147 | 145 | 98.6395 | |
| ciseli-custom | SNP | tv | segdup | * | 95.0488 | 98.0661 | 92.2117 | 92.0351 | 8367 | 165 | 8347 | 705 | 88 | 12.4823 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.4223 | 99.8206 | 99.0272 | 61.0885 | 8345 | 15 | 8347 | 82 | 80 | 97.5610 | |
| jli-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.4223 | 99.8206 | 99.0272 | 61.0885 | 8345 | 15 | 8347 | 82 | 80 | 97.5610 | |
| hfeng-pmm3 | INDEL | D6_15 | HG002compoundhet | * | 95.1894 | 92.4704 | 98.0731 | 32.6928 | 8351 | 680 | 8347 | 164 | 158 | 96.3415 | |
| ckim-dragen | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 97.1997 | 99.7848 | 94.7452 | 59.6307 | 8348 | 18 | 8348 | 463 | 461 | 99.5680 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.9393 | 99.8565 | 98.0388 | 61.8965 | 8348 | 12 | 8348 | 167 | 166 | 99.4012 | |
| raldana-dualsentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.9393 | 99.8565 | 98.0388 | 61.8965 | 8348 | 12 | 8348 | 167 | 166 | 99.4012 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.6936 | 99.8565 | 97.5576 | 63.3125 | 8348 | 12 | 8348 | 209 | 208 | 99.5215 | |
| bgallagher-sentieon | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.6936 | 99.8565 | 97.5576 | 63.3125 | 8348 | 12 | 8348 | 209 | 208 | 99.5215 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.1097 | 99.8684 | 98.3624 | 63.9223 | 8349 | 11 | 8349 | 139 | 138 | 99.2806 | |
| dgrover-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.1097 | 99.8684 | 98.3624 | 63.9223 | 8349 | 11 | 8349 | 139 | 138 | 99.2806 | |
| gduggal-bwaplat | SNP | tv | segdup | * | 98.5186 | 97.8083 | 99.2394 | 94.9737 | 8345 | 187 | 8350 | 64 | 11 | 17.1875 | |
| jmaeng-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.7589 | 99.8685 | 97.6736 | 55.3106 | 8355 | 11 | 8355 | 199 | 195 | 97.9899 | |
| ckim-vqsr | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.8173 | 99.8685 | 97.7879 | 55.5694 | 8355 | 11 | 8355 | 189 | 186 | 98.4127 | |
| astatham-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.8291 | 99.8805 | 97.7996 | 55.4001 | 8356 | 10 | 8356 | 188 | 186 | 98.9362 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.3106 | 99.8446 | 98.7824 | 50.8940 | 8353 | 13 | 8356 | 103 | 101 | 98.0583 | |
| ckim-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.8233 | 99.8805 | 97.7882 | 55.5665 | 8356 | 10 | 8356 | 189 | 186 | 98.4127 | |
| jpowers-varprowl | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 74.2102 | 70.4505 | 78.3938 | 47.6036 | 8366 | 3509 | 8356 | 2303 | 2257 | 98.0026 | |
| raldana-dualsentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.6774 | 99.8805 | 97.5029 | 53.2435 | 8356 | 10 | 8356 | 214 | 211 | 98.5981 | |
| dgrover-gatk | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.8527 | 99.9044 | 97.8230 | 55.8586 | 8358 | 8 | 8358 | 186 | 184 | 98.9247 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 98.2716 | 99.9044 | 96.6913 | 55.0844 | 8358 | 8 | 8358 | 286 | 283 | 98.9510 | |
| ckim-vqsr | SNP | tv | segdup | * | 98.8248 | 98.0778 | 99.5833 | 94.7773 | 8368 | 164 | 8364 | 35 | 5 | 14.2857 | |
| qzeng-custom | SNP | tv | map_l150_m2_e1 | * | 83.1087 | 72.8830 | 96.6721 | 87.1352 | 8383 | 3119 | 8366 | 288 | 243 | 84.3750 | |
| ckim-vqsr | SNP | ti | map_l150_m2_e0 | het | 78.3377 | 64.9794 | 98.6095 | 91.3777 | 8370 | 4511 | 8368 | 118 | 2 | 1.6949 | |
| hfeng-pmm2 | INDEL | D6_15 | HG002compoundhet | * | 95.3103 | 92.7251 | 98.0438 | 33.3983 | 8374 | 657 | 8370 | 167 | 162 | 97.0060 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 62.2772 | 53.6141 | 74.2796 | 69.6025 | 8619 | 7457 | 8378 | 2901 | 2024 | 69.7690 | |
| ciseli-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 62.2772 | 53.6141 | 74.2796 | 69.6025 | 8619 | 7457 | 8378 | 2901 | 2024 | 69.7690 | |
| qzeng-custom | SNP | tv | segdup | * | 98.3829 | 98.6521 | 98.1152 | 93.4371 | 8417 | 115 | 8381 | 161 | 27 | 16.7702 | |
| ndellapenna-hhga | INDEL | D1_5 | HG002compoundhet | * | 69.2944 | 67.8709 | 70.7788 | 60.8775 | 8304 | 3931 | 8388 | 3463 | 3380 | 97.6032 | |
| hfeng-pmm1 | INDEL | D6_15 | HG002compoundhet | * | 95.4940 | 92.9354 | 98.1974 | 32.8011 | 8393 | 638 | 8389 | 154 | 150 | 97.4026 | |
| gduggal-snapplat | SNP | tv | map_l100_m2_e0 | homalt | 95.2754 | 91.0462 | 99.9166 | 66.1343 | 8389 | 825 | 8390 | 7 | 2 | 28.5714 | |
| ltrigg-rtg1 | INDEL | D6_15 | HG002compoundhet | * | 96.2411 | 93.4780 | 99.1726 | 30.6557 | 8442 | 589 | 8390 | 70 | 63 | 90.0000 | |
| gduggal-bwaplat | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 82.2975 | 70.7032 | 98.4402 | 61.5346 | 8396 | 3479 | 8394 | 133 | 53 | 39.8496 | |
| astatham-gatk | SNP | tv | segdup | * | 99.1149 | 98.4412 | 99.7979 | 91.5044 | 8399 | 133 | 8395 | 17 | 6 | 35.2941 | |
| mlin-fermikit | SNP | ti | HG002compoundhet | het | 93.4304 | 88.3535 | 99.1262 | 38.1960 | 8398 | 1107 | 8395 | 74 | 14 | 18.9189 | |
| eyeh-varpipe | SNP | tv | segdup | * | 97.0429 | 99.8476 | 94.3914 | 91.6933 | 8519 | 13 | 8398 | 499 | 11 | 2.2044 | |
| hfeng-pmm2 | SNP | tv | HG002compoundhet | * | 96.9561 | 94.2396 | 99.8337 | 46.6519 | 8409 | 514 | 8407 | 14 | 7 | 50.0000 | |
| gduggal-snapplat | SNP | tv | segdup | * | 98.7367 | 98.4294 | 99.0458 | 94.5607 | 8398 | 134 | 8408 | 81 | 13 | 16.0494 | |
| gduggal-bwavard | SNP | ti | func_cds | het | 99.2690 | 99.0710 | 99.4677 | 32.1944 | 8425 | 79 | 8409 | 45 | 15 | 33.3333 | |
| egarrison-hhga | INDEL | D1_5 | HG002compoundhet | * | 69.0217 | 68.1406 | 69.9260 | 60.9500 | 8337 | 3898 | 8410 | 3617 | 3521 | 97.3459 | |
| raldana-dualsentieon | SNP | tv | HG002compoundhet | * | 96.9959 | 94.2620 | 99.8931 | 47.1699 | 8411 | 512 | 8410 | 9 | 5 | 55.5556 | |
| gduggal-snapvard | SNP | ti | func_cds | het | 99.3512 | 99.0945 | 99.6092 | 31.0131 | 8427 | 77 | 8411 | 33 | 13 | 39.3939 | |
| gduggal-snapplat | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | het | 70.5032 | 65.2830 | 76.6308 | 62.2986 | 6794 | 3613 | 8411 | 2565 | 1113 | 43.3918 | |
| hfeng-pmm1 | SNP | tv | HG002compoundhet | * | 97.0546 | 94.3517 | 99.9169 | 46.7711 | 8419 | 504 | 8417 | 7 | 7 | 100.0000 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 94.6208 | 90.1948 | 99.5035 | 32.1162 | 8380 | 911 | 8417 | 42 | 38 | 90.4762 | |
| jlack-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 94.6208 | 90.1948 | 99.5035 | 32.1162 | 8380 | 911 | 8417 | 42 | 38 | 90.4762 | |
| rpoplin-dv42 | INDEL | D6_15 | HG002compoundhet | * | 94.2413 | 93.2455 | 95.2586 | 34.8015 | 8421 | 610 | 8418 | 419 | 413 | 98.5680 | |