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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
70101-70150 / 86044 show all | |||||||||||||||
| anovak-vg | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 97.9539 | 97.6909 | 98.2183 | 50.5289 | 2200 | 52 | 2205 | 40 | 32 | 80.0000 | |
| anovak-vg | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 97.1662 | 96.4657 | 97.8769 | 49.3548 | 464 | 17 | 461 | 10 | 8 | 80.0000 | |
| anovak-vg | SNP | tv | map_l125_m0_e0 | homalt | 84.5342 | 73.7055 | 99.0926 | 73.0694 | 1637 | 584 | 1638 | 15 | 12 | 80.0000 | |
| astatham-gatk | INDEL | D16_PLUS | * | homalt | 99.1187 | 99.7045 | 98.5397 | 70.8497 | 1687 | 5 | 1687 | 25 | 20 | 80.0000 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 98.8086 | 99.5997 | 98.0299 | 75.0492 | 1244 | 5 | 1244 | 25 | 20 | 80.0000 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 98.8086 | 99.5997 | 98.0299 | 75.0492 | 1244 | 5 | 1244 | 25 | 20 | 80.0000 | |
| astatham-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 95.1642 | 98.7805 | 91.8033 | 88.0392 | 162 | 2 | 112 | 10 | 8 | 80.0000 | |
| astatham-gatk | INDEL | D1_5 | map_siren | homalt | 99.6154 | 99.6575 | 99.5734 | 81.2660 | 1164 | 4 | 1167 | 5 | 4 | 80.0000 | |
| astatham-gatk | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 98.7147 | 100.0000 | 97.4619 | 47.3262 | 192 | 0 | 192 | 5 | 4 | 80.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 95.8473 | 94.0320 | 97.7341 | 82.3702 | 646 | 41 | 647 | 15 | 12 | 80.0000 | |
| astatham-gatk | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | het | 95.4274 | 94.3750 | 96.5035 | 89.8148 | 151 | 9 | 138 | 5 | 4 | 80.0000 | |
| astatham-gatk | INDEL | I1_5 | map_l100_m1_e0 | homalt | 99.5197 | 100.0000 | 99.0440 | 80.6440 | 518 | 0 | 518 | 5 | 4 | 80.0000 | |
| astatham-gatk | INDEL | I1_5 | map_l100_m2_e0 | homalt | 99.5314 | 100.0000 | 99.0672 | 81.9892 | 531 | 0 | 531 | 5 | 4 | 80.0000 | |
| astatham-gatk | INDEL | I1_5 | map_l100_m2_e1 | homalt | 99.5392 | 100.0000 | 99.0826 | 82.0606 | 540 | 0 | 540 | 5 | 4 | 80.0000 | |
| astatham-gatk | INDEL | I6_15 | HG002complexvar | het | 99.2512 | 98.7261 | 99.7819 | 59.6303 | 2325 | 30 | 2288 | 5 | 4 | 80.0000 | |
| astatham-gatk | SNP | * | map_l125_m1_e0 | homalt | 99.4624 | 99.0476 | 99.8807 | 63.5573 | 16744 | 161 | 16744 | 20 | 16 | 80.0000 | |
| astatham-gatk | SNP | * | map_l125_m2_e0 | homalt | 99.4712 | 99.0619 | 99.8839 | 66.1554 | 17212 | 163 | 17212 | 20 | 16 | 80.0000 | |
| astatham-gatk | SNP | * | map_l125_m2_e1 | homalt | 99.4760 | 99.0703 | 99.8850 | 66.1765 | 17369 | 163 | 17369 | 20 | 16 | 80.0000 | |
| astatham-gatk | SNP | tv | map_l250_m1_e0 | homalt | 98.5866 | 97.7804 | 99.4062 | 85.3845 | 837 | 19 | 837 | 5 | 4 | 80.0000 | |
| astatham-gatk | SNP | tv | map_l250_m2_e0 | homalt | 98.5460 | 97.6521 | 99.4565 | 86.4046 | 915 | 22 | 915 | 5 | 4 | 80.0000 | |
| astatham-gatk | SNP | tv | map_l250_m2_e1 | homalt | 98.5600 | 97.6744 | 99.4618 | 86.4833 | 924 | 22 | 924 | 5 | 4 | 80.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_51to200 | hetalt | 91.4871 | 85.8770 | 97.8814 | 35.2538 | 377 | 62 | 462 | 10 | 8 | 80.0000 | |
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 96.5777 | 97.5610 | 95.6140 | 88.7352 | 160 | 4 | 109 | 5 | 4 | 80.0000 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 56.4570 | 44.2786 | 77.8761 | 77.2177 | 89 | 112 | 88 | 25 | 20 | 80.0000 | |
| ciseli-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 46.1538 | 80.0000 | 32.4324 | 96.0512 | 12 | 3 | 12 | 25 | 20 | 80.0000 | |
| ciseli-custom | INDEL | D16_PLUS | map_l100_m2_e1 | homalt | 52.3810 | 68.7500 | 42.3077 | 90.1515 | 11 | 5 | 11 | 15 | 12 | 80.0000 | |
| ciseli-custom | INDEL | D1_5 | map_l150_m1_e0 | homalt | 78.3964 | 77.1930 | 79.6380 | 89.0810 | 176 | 52 | 176 | 45 | 36 | 80.0000 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 9.4488 | 5.6604 | 28.5714 | 87.7907 | 6 | 100 | 6 | 15 | 12 | 80.0000 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | * | 25.0000 | 16.2162 | 54.5455 | 77.0833 | 6 | 31 | 6 | 5 | 4 | 80.0000 | |
| ciseli-custom | INDEL | I1_5 | map_l100_m2_e1 | homalt | 53.9043 | 40.0000 | 82.6255 | 84.1880 | 216 | 324 | 214 | 45 | 36 | 80.0000 | |
| ckim-dragen | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.6797 | 99.5705 | 99.7890 | 51.2505 | 11824 | 51 | 11826 | 25 | 20 | 80.0000 | |
| ckim-dragen | INDEL | I16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.1175 | 95.4167 | 96.8288 | 81.8217 | 458 | 22 | 458 | 15 | 12 | 80.0000 | |
| ckim-dragen | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.8998 | 98.4501 | 99.3536 | 73.4648 | 1588 | 25 | 1537 | 10 | 8 | 80.0000 | |
| ckim-dragen | INDEL | I1_5 | map_l100_m0_e0 | homalt | 98.5657 | 99.5192 | 97.6303 | 79.2527 | 207 | 1 | 206 | 5 | 4 | 80.0000 | |
| ckim-dragen | INDEL | I6_15 | HG002complexvar | het | 99.2082 | 98.6412 | 99.7818 | 59.3866 | 2323 | 32 | 2286 | 5 | 4 | 80.0000 | |
| cchapple-custom | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | * | 0.0000 | 0.0000 | 76.1905 | 97.3552 | 0 | 0 | 16 | 5 | 4 | 80.0000 | |
| cchapple-custom | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 0.0000 | 0.0000 | 66.6667 | 97.4138 | 0 | 0 | 10 | 5 | 4 | 80.0000 | |
| cchapple-custom | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 0.0000 | 0.0000 | 66.6667 | 97.4271 | 0 | 0 | 10 | 5 | 4 | 80.0000 | |
| cchapple-custom | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 0.0000 | 0.0000 | 50.0000 | 97.6247 | 0 | 0 | 5 | 5 | 4 | 80.0000 | |
| cchapple-custom | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | * | 0.0000 | 0.0000 | 76.1905 | 97.3552 | 0 | 0 | 16 | 5 | 4 | 80.0000 | |
| cchapple-custom | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 0.0000 | 0.0000 | 66.6667 | 97.4138 | 0 | 0 | 10 | 5 | 4 | 80.0000 | |
| cchapple-custom | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.1282 | 97.8892 | 92.5187 | 45.3678 | 371 | 8 | 371 | 30 | 24 | 80.0000 | |
| cchapple-custom | INDEL | I16_PLUS | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 97.0545 | 96.8421 | 97.2678 | 86.8156 | 92 | 3 | 178 | 5 | 4 | 80.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 97.7995 | 96.8208 | 98.7981 | 64.4748 | 335 | 11 | 411 | 5 | 4 | 80.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_homopolymer_6to10 | * | 98.9760 | 98.3446 | 99.6155 | 65.8661 | 2614 | 44 | 2591 | 10 | 8 | 80.0000 | |
| cchapple-custom | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | * | 99.1368 | 98.7619 | 99.5146 | 57.7002 | 1037 | 13 | 1025 | 5 | 4 | 80.0000 | |
| ckim-gatk | INDEL | I1_5 | map_l100_m1_e0 | homalt | 99.4231 | 99.8069 | 99.0421 | 81.1416 | 517 | 1 | 517 | 5 | 4 | 80.0000 | |
| ckim-gatk | INDEL | I1_5 | map_l100_m2_e0 | homalt | 99.4371 | 99.8117 | 99.0654 | 82.4417 | 530 | 1 | 530 | 5 | 4 | 80.0000 | |
| ckim-gatk | INDEL | I1_5 | map_l100_m2_e1 | homalt | 99.4465 | 99.8148 | 99.0809 | 82.4799 | 539 | 1 | 539 | 5 | 4 | 80.0000 | |
| ckim-gatk | INDEL | I6_15 | HG002complexvar | het | 99.3586 | 98.9384 | 99.7824 | 59.6346 | 2330 | 25 | 2293 | 5 | 4 | 80.0000 | |