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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
13501-13550 / 86044 show all | |||||||||||||||
| cchapple-custom | INDEL | * | lowcmp_SimpleRepeat_quadTR_51to200 | * | 95.4300 | 93.8983 | 97.0125 | 53.6214 | 2493 | 162 | 3572 | 110 | 76 | 69.0909 | |
| ndellapenna-hhga | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 67.0371 | 50.6098 | 99.2537 | 54.5763 | 166 | 162 | 133 | 1 | 0 | 0.0000 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | hetalt | 84.8955 | 75.4173 | 97.0986 | 64.6133 | 497 | 162 | 502 | 15 | 11 | 73.3333 | |
| ndellapenna-hhga | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | hetalt | 84.8955 | 75.4173 | 97.0986 | 64.6133 | 497 | 162 | 502 | 15 | 11 | 73.3333 | |
| dgrover-gatk | SNP | ti | map_l150_m1_e0 | * | 99.2284 | 99.1782 | 99.2787 | 76.9359 | 19550 | 162 | 19546 | 142 | 35 | 24.6479 | |
| egarrison-hhga | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 93.4024 | 92.4861 | 94.3370 | 90.4803 | 1994 | 162 | 1999 | 120 | 81 | 67.5000 | |
| egarrison-hhga | INDEL | I1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.6158 | 95.9792 | 99.3093 | 24.9856 | 3867 | 162 | 3882 | 27 | 26 | 96.2963 | |
| ckim-isaac | INDEL | D1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | homalt | 87.5378 | 78.4574 | 98.9950 | 44.8753 | 590 | 162 | 591 | 6 | 5 | 83.3333 | |
| ckim-isaac | INDEL | I6_15 | map_siren | * | 63.4176 | 46.8852 | 97.9592 | 84.2105 | 143 | 162 | 144 | 3 | 2 | 66.6667 | |
| ckim-isaac | SNP | tv | lowcmp_SimpleRepeat_homopolymer_6to10 | homalt | 97.8461 | 95.8323 | 99.9464 | 57.4072 | 3725 | 162 | 3727 | 2 | 2 | 100.0000 | |
| ltrigg-rtg1 | INDEL | D1_5 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 99.1571 | 98.6358 | 99.6839 | 46.3252 | 11713 | 162 | 11670 | 37 | 13 | 35.1351 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331 | het | 85.6972 | 75.6757 | 98.7780 | 69.6726 | 504 | 162 | 485 | 6 | 1 | 16.6667 | |
| ltrigg-rtg1 | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_merged | het | 85.6972 | 75.6757 | 98.7780 | 69.6726 | 504 | 162 | 485 | 6 | 1 | 16.6667 | |
| gduggal-bwaplat | INDEL | I1_5 | map_l125_m2_e1 | homalt | 69.0840 | 52.7697 | 100.0000 | 91.9982 | 181 | 162 | 181 | 0 | 0 | ||
| gduggal-bwaplat | INDEL | * | segdup | het | 93.7455 | 88.9495 | 99.0881 | 97.0073 | 1304 | 162 | 1304 | 12 | 6 | 50.0000 | |
| gduggal-bwafb | INDEL | D1_5 | lowcmp_AllRepeats_lt51bp_gt95identity_merged | homalt | 98.2904 | 99.2602 | 97.3394 | 75.4562 | 21737 | 162 | 21732 | 594 | 582 | 97.9798 | |
| gduggal-bwafb | SNP | * | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.5802 | 99.1091 | 98.0569 | 48.2748 | 18021 | 162 | 18066 | 358 | 80 | 22.3464 | |
| gduggal-bwafb | SNP | ti | HG002compoundhet | * | 98.0359 | 99.0731 | 97.0203 | 40.7433 | 17316 | 162 | 17387 | 534 | 136 | 25.4682 | |
| eyeh-varpipe | SNP | * | lowcmp_SimpleRepeat_diTR_11to50 | * | 96.3637 | 98.3285 | 94.4759 | 62.6464 | 9530 | 162 | 8500 | 497 | 105 | 21.1268 | |
| asubramanian-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.0691 | 97.8061 | 98.3336 | 59.4584 | 7222 | 162 | 7199 | 122 | 98 | 80.3279 | |
| asubramanian-gatk | INDEL | * | map_l150_m2_e1 | het | 87.2472 | 82.4675 | 92.6150 | 93.8423 | 762 | 162 | 765 | 61 | 6 | 9.8361 | |
| anovak-vg | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 78.1375 | 85.3261 | 72.0660 | 79.7424 | 942 | 162 | 1179 | 457 | 238 | 52.0788 | |
| bgallagher-sentieon | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 98.0194 | 98.8917 | 97.1624 | 67.0369 | 14455 | 162 | 14073 | 411 | 388 | 94.4039 | |
| asubramanian-gatk | SNP | tv | map_l250_m0_e0 | homalt | 28.4444 | 16.5803 | 100.0000 | 98.7688 | 32 | 161 | 32 | 0 | 0 | ||
| 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 | INDEL | * | map_l100_m2_e0 | het | 95.1270 | 93.0212 | 97.3303 | 87.5556 | 2146 | 161 | 2151 | 59 | 12 | 20.3390 | |
| anovak-vg | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | hetalt | 0.0000 | 30.9013 | 0.0000 | 0.0000 | 72 | 161 | 0 | 0 | 0 | ||
| anovak-vg | INDEL | * | map_l100_m2_e1 | homalt | 76.5374 | 87.4317 | 68.0572 | 81.0009 | 1120 | 161 | 1142 | 536 | 499 | 93.0970 | |
| anovak-vg | INDEL | D1_5 | map_l125_m1_e0 | * | 83.2162 | 85.2022 | 81.3206 | 87.0514 | 927 | 161 | 936 | 215 | 77 | 35.8140 | |
| ndellapenna-hhga | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | hetalt | 78.4355 | 65.1515 | 98.5240 | 37.7011 | 301 | 161 | 267 | 4 | 3 | 75.0000 | |
| 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 | |
| mlin-fermikit | SNP | * | lowcmp_SimpleRepeat_triTR_11to50 | het | 98.0092 | 96.5121 | 99.5535 | 31.2615 | 4455 | 161 | 4459 | 20 | 0 | 0.0000 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | het | 86.4488 | 81.0811 | 92.5776 | 87.3872 | 690 | 161 | 686 | 55 | 9 | 16.3636 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | het | 32.5779 | 41.6667 | 26.7442 | 96.8657 | 115 | 161 | 115 | 315 | 15 | 4.7619 | |
| hfeng-pmm1 | INDEL | * | HG002complexvar | hetalt | 97.6611 | 95.6475 | 99.7614 | 69.0744 | 3538 | 161 | 3763 | 9 | 8 | 88.8889 | |
| ghariani-varprowl | INDEL | D16_PLUS | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 69.6305 | 59.6491 | 83.6237 | 65.9953 | 238 | 161 | 240 | 47 | 45 | 95.7447 | |
| gduggal-snapvard | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | * | 69.9723 | 87.2727 | 58.3961 | 90.3865 | 1104 | 161 | 1085 | 773 | 47 | 6.0802 | |
| gduggal-snapvard | INDEL | * | lowcmp_SimpleRepeat_triTR_51to200 | * | 34.4471 | 27.4775 | 46.1538 | 56.0976 | 61 | 161 | 108 | 126 | 89 | 70.6349 | |
| gduggal-snapvard | INDEL | D16_PLUS | lowcmp_SimpleRepeat_quadTR_51to200 | het | 3.3520 | 1.8293 | 20.0000 | 59.4595 | 3 | 161 | 6 | 24 | 17 | 70.8333 | |
| rpoplin-dv42 | SNP | ti | map_l100_m0_e0 | het | 99.0327 | 98.8486 | 99.2174 | 68.2957 | 13822 | 161 | 13819 | 109 | 66 | 60.5505 | |
| jlack-gatk | SNP | tv | HG002complexvar | het | 99.8776 | 99.8932 | 99.8620 | 22.3009 | 150570 | 161 | 150494 | 208 | 64 | 30.7692 | |
| hfeng-pmm1 | SNP | ti | map_l150_m2_e1 | het | 99.1170 | 98.7630 | 99.4736 | 76.1158 | 12854 | 161 | 12850 | 68 | 17 | 25.0000 | |
| hfeng-pmm1 | INDEL | D16_PLUS | HG002compoundhet | * | 95.0512 | 93.1226 | 97.0614 | 33.7659 | 2180 | 161 | 2180 | 66 | 62 | 93.9394 | |
| jlack-gatk | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 94.4937 | 90.2365 | 99.1726 | 34.9981 | 1488 | 161 | 1678 | 14 | 14 | 100.0000 | |
| hfeng-pmm3 | INDEL | D16_PLUS | HG002compoundhet | * | 95.0927 | 93.1226 | 97.1480 | 33.6879 | 2180 | 161 | 2180 | 64 | 63 | 98.4375 | |
| hfeng-pmm3 | INDEL | D16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | * | 96.4683 | 94.9844 | 97.9994 | 58.6524 | 3049 | 161 | 3037 | 62 | 60 | 96.7742 | |
| ckim-dragen | SNP | ti | map_l150_m2_e1 | het | 97.5046 | 98.7630 | 96.2780 | 81.6768 | 12854 | 161 | 12856 | 497 | 54 | 10.8652 | |
| ckim-gatk | INDEL | D1_5 | * | het | 99.6268 | 99.8162 | 99.4381 | 60.7761 | 87413 | 161 | 87419 | 494 | 126 | 25.5061 | |
| ciseli-custom | INDEL | * | map_l250_m2_e0 | * | 57.9713 | 51.3595 | 66.5370 | 97.5315 | 170 | 161 | 171 | 86 | 44 | 51.1628 | |