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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
18501-18550 / 86044 show all | |||||||||||||||
| asubramanian-gatk | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 0.0000 | 0.0000 | 83.8323 | 0 | 0 | 0 | 27 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | C16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 0.0000 | 0.0000 | 83.8323 | 0 | 0 | 0 | 27 | 0 | 0.0000 | ||
| asubramanian-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 95.5262 | 96.9639 | 94.1304 | 83.3091 | 511 | 16 | 433 | 27 | 27 | 100.0000 | |
| asubramanian-gatk | INDEL | I1_5 | HG002complexvar | homalt | 99.6538 | 99.5092 | 99.7987 | 52.7938 | 13382 | 66 | 13389 | 27 | 26 | 96.2963 | |
| asubramanian-gatk | INDEL | I1_5 | map_siren | het | 89.9163 | 82.9863 | 98.1092 | 85.7556 | 1395 | 286 | 1401 | 27 | 5 | 18.5185 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | het | 97.3602 | 96.1713 | 98.5789 | 73.8003 | 1482 | 59 | 1873 | 27 | 17 | 62.9630 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 91.2631 | 87.6866 | 95.1439 | 62.7595 | 470 | 66 | 529 | 27 | 23 | 85.1852 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 96.2350 | 95.0135 | 97.4884 | 66.2374 | 705 | 37 | 1048 | 27 | 19 | 70.3704 | |
| asubramanian-gatk | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 95.2682 | 92.0384 | 98.7330 | 37.3051 | 1630 | 141 | 2104 | 27 | 26 | 96.2963 | |
| asubramanian-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 99.0423 | 98.7194 | 99.3672 | 50.0468 | 4240 | 55 | 4240 | 27 | 2 | 7.4074 | |
| asubramanian-gatk | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | hetalt | 6.8966 | 100.0000 | 3.5714 | 80.5556 | 1 | 0 | 1 | 27 | 0 | 0.0000 | |
| asubramanian-gatk | SNP | * | map_l125_m1_e0 | * | 46.3852 | 30.2138 | 99.8032 | 91.3119 | 13695 | 31632 | 13692 | 27 | 6 | 22.2222 | |
| asubramanian-gatk | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 99.0782 | 98.7966 | 99.3614 | 79.3181 | 4187 | 51 | 4201 | 27 | 8 | 29.6296 | |
| bgallagher-sentieon | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 92.6448 | 88.6228 | 97.0492 | 64.9425 | 888 | 114 | 888 | 27 | 24 | 88.8889 | |
| bgallagher-sentieon | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 99.6756 | 99.9350 | 99.4176 | 34.7502 | 4613 | 3 | 4609 | 27 | 2 | 7.4074 | |
| bgallagher-sentieon | SNP | tv | map_l250_m0_e0 | het | 96.6350 | 97.9021 | 95.4003 | 93.3341 | 560 | 12 | 560 | 27 | 2 | 7.4074 | |
| bgallagher-sentieon | INDEL | D6_15 | HG002complexvar | het | 98.9817 | 98.8462 | 99.1176 | 59.3518 | 3084 | 36 | 3033 | 27 | 21 | 77.7778 | |
| mlin-fermikit | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 96.3984 | 95.9444 | 96.8568 | 59.7281 | 828 | 35 | 832 | 27 | 25 | 92.5926 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | hetalt | 81.9762 | 69.7710 | 99.3570 | 62.1268 | 4143 | 1795 | 4172 | 27 | 27 | 100.0000 | |
| mlin-fermikit | SNP | * | lowcmp_SimpleRepeat_quadTR_51to200 | homalt | 70.4762 | 90.2439 | 57.8125 | 92.6606 | 37 | 4 | 37 | 27 | 26 | 96.2963 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt51bp_gt95identity_merged | * | 98.8303 | 98.7700 | 98.8907 | 49.1114 | 2409 | 30 | 2407 | 27 | 22 | 81.4815 | |
| mlin-fermikit | SNP | ti | lowcmp_SimpleRepeat_quadTR_51to200 | * | 75.1220 | 76.2376 | 74.0385 | 94.4710 | 77 | 24 | 77 | 27 | 17 | 62.9630 | |
| mlin-fermikit | SNP | tv | lowcmp_AllRepeats_51to200bp_gt95identity_merged | het | 94.6799 | 92.3387 | 97.1429 | 70.2456 | 916 | 76 | 918 | 27 | 3 | 11.1111 | |
| ndellapenna-hhga | INDEL | D1_5 | map_l100_m2_e1 | het | 97.7909 | 97.7129 | 97.8690 | 82.3415 | 1239 | 29 | 1240 | 27 | 9 | 33.3333 | |
| ltrigg-rtg2 | SNP | tv | map_l100_m0_e0 | * | 98.6223 | 97.5189 | 99.7508 | 54.0500 | 10809 | 275 | 10808 | 27 | 2 | 7.4074 | |
| mlin-fermikit | INDEL | * | map_l250_m1_e0 | * | 52.1158 | 38.3607 | 81.2500 | 92.0966 | 117 | 188 | 117 | 27 | 20 | 74.0741 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l100_m2_e1 | homalt | 51.7241 | 93.7500 | 35.7143 | 94.3396 | 15 | 1 | 15 | 27 | 8 | 29.6296 | |
| mlin-fermikit | INDEL | D16_PLUS | map_l125_m2_e1 | * | 55.2632 | 75.0000 | 43.7500 | 93.7662 | 21 | 7 | 21 | 27 | 3 | 11.1111 | |
| mlin-fermikit | INDEL | D16_PLUS | map_siren | homalt | 59.7701 | 76.4706 | 49.0566 | 94.4906 | 26 | 8 | 26 | 27 | 6 | 22.2222 | |
| qzeng-custom | INDEL | D16_PLUS | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 76.5217 | 100.0000 | 61.9718 | 67.8733 | 45 | 0 | 44 | 27 | 2 | 7.4074 | |
| qzeng-custom | INDEL | D1_5 | map_l100_m0_e0 | het | 86.9445 | 80.0338 | 95.1613 | 92.6675 | 473 | 118 | 531 | 27 | 20 | 74.0741 | |
| qzeng-custom | INDEL | D1_5 | map_l125_m1_e0 | het | 86.5537 | 78.7879 | 96.0177 | 92.5772 | 572 | 154 | 651 | 27 | 21 | 77.7778 | |
| qzeng-custom | INDEL | D1_5 | map_l125_m2_e0 | het | 86.7233 | 78.9267 | 96.2291 | 92.7251 | 603 | 161 | 689 | 27 | 21 | 77.7778 | |
| qzeng-custom | INDEL | D1_5 | map_l125_m2_e1 | het | 86.8330 | 79.0909 | 96.2552 | 92.7907 | 609 | 161 | 694 | 27 | 21 | 77.7778 | |
| qzeng-custom | INDEL | D1_5 | map_l150_m1_e0 | * | 84.3978 | 75.4533 | 95.7480 | 93.2533 | 541 | 176 | 608 | 27 | 23 | 85.1852 | |
| qzeng-custom | INDEL | D1_5 | map_l150_m2_e0 | * | 85.0239 | 76.2779 | 96.0352 | 93.3503 | 582 | 181 | 654 | 27 | 23 | 85.1852 | |
| qzeng-custom | INDEL | D1_5 | map_l150_m2_e1 | * | 85.2592 | 76.6067 | 96.1151 | 93.3295 | 596 | 182 | 668 | 27 | 23 | 85.1852 | |
| qzeng-custom | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 89.1712 | 90.4306 | 87.9464 | 73.4911 | 189 | 20 | 197 | 27 | 10 | 37.0370 | |
| qzeng-custom | INDEL | D6_15 | map_l100_m1_e0 | homalt | 80.0602 | 87.5000 | 73.7864 | 75.5344 | 56 | 8 | 76 | 27 | 2 | 7.4074 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 93.3879 | 93.2203 | 93.5561 | 66.6135 | 330 | 24 | 392 | 27 | 6 | 22.2222 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_51to200 | het | 62.9921 | 66.6667 | 59.7015 | 56.2092 | 6 | 3 | 40 | 27 | 24 | 88.8889 | |
| qzeng-custom | INDEL | I6_15 | lowcmp_SimpleRepeat_homopolymer_gt10 | homalt | 0.0000 | 0.0000 | 95.8140 | 0 | 0 | 0 | 27 | 0 | 0.0000 | ||
| qzeng-custom | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.3772 | 99.5369 | 99.2181 | 66.4594 | 3439 | 16 | 3426 | 27 | 14 | 51.8519 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | homalt | 99.2401 | 98.9858 | 99.4956 | 77.2155 | 5368 | 55 | 5326 | 27 | 13 | 48.1481 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | * | 88.4623 | 92.1212 | 85.0829 | 92.3011 | 152 | 13 | 154 | 27 | 7 | 25.9259 | |
| qzeng-custom | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | homalt | 99.2401 | 98.9858 | 99.4956 | 77.2155 | 5368 | 55 | 5326 | 27 | 13 | 48.1481 | |
| raldana-dualsentieon | INDEL | * | lowcmp_SimpleRepeat_quadTR_11to50 | homalt | 99.7452 | 99.9341 | 99.5570 | 56.8831 | 6068 | 4 | 6068 | 27 | 27 | 100.0000 | |
| raldana-dualsentieon | INDEL | * | map_l125_m1_e0 | het | 97.3655 | 96.7790 | 97.9592 | 85.1598 | 1292 | 43 | 1296 | 27 | 3 | 11.1111 | |
| raldana-dualsentieon | INDEL | * | map_l125_m2_e0 | het | 97.3979 | 96.7649 | 98.0392 | 86.1441 | 1346 | 45 | 1350 | 27 | 3 | 11.1111 | |
| raldana-dualsentieon | INDEL | * | map_l125_m2_e1 | het | 97.4295 | 96.8040 | 98.0631 | 86.2674 | 1363 | 45 | 1367 | 27 | 3 | 11.1111 | |