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 | |
|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
|
68101-68150 / 86044 show all | |||||||||||||||
| ciseli-custom | INDEL | D1_5 | map_l125_m0_e0 | homalt | 78.7671 | 77.7027 | 79.8611 | 87.8069 | 115 | 33 | 115 | 29 | 24 | 82.7586 | |
| ciseli-custom | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | het | 20.7836 | 13.0081 | 51.6667 | 91.2281 | 32 | 214 | 31 | 29 | 15 | 51.7241 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt101bp_gt95identity_merged | hetalt | 96.6289 | 93.8110 | 99.6213 | 24.3430 | 7594 | 501 | 7629 | 29 | 29 | 100.0000 | |
| ckim-gatk | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | hetalt | 96.6034 | 93.7599 | 99.6247 | 26.3649 | 7663 | 510 | 7699 | 29 | 29 | 100.0000 | |
| gduggal-snapplat | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 40.3615 | 29.2553 | 65.0602 | 70.8772 | 55 | 133 | 54 | 29 | 19 | 65.5172 | |
| gduggal-snapplat | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 92.5093 | 87.1670 | 98.5493 | 64.5442 | 1963 | 289 | 1970 | 29 | 7 | 24.1379 | |
| gduggal-snapfb | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | hetalt | 71.4799 | 62.8596 | 82.8402 | 34.4961 | 743 | 439 | 140 | 29 | 29 | 100.0000 | |
| gduggal-snapfb | INDEL | I1_5 | map_l100_m0_e0 | het | 92.9242 | 94.4785 | 91.4201 | 83.9430 | 308 | 18 | 309 | 29 | 4 | 13.7931 | |
| gduggal-snapvard | INDEL | C16_PLUS | HG002complexvar | * | 0.0000 | 0.0000 | 35.5556 | 72.5610 | 0 | 0 | 16 | 29 | 6 | 20.6897 | |
| gduggal-snapvard | INDEL | C6_15 | * | homalt | 0.0000 | 0.0000 | 69.1489 | 89.5439 | 0 | 0 | 65 | 29 | 21 | 72.4138 | |
| gduggal-snapfb | SNP | tv | map_l125_m1_e0 | homalt | 97.7782 | 96.1263 | 99.4878 | 77.1149 | 5633 | 227 | 5633 | 29 | 7 | 24.1379 | |
| gduggal-snapfb | SNP | tv | map_l125_m2_e0 | homalt | 97.8112 | 96.1775 | 99.5014 | 78.2474 | 5787 | 230 | 5787 | 29 | 7 | 24.1379 | |
| gduggal-snapfb | SNP | tv | map_l125_m2_e1 | homalt | 97.8321 | 96.2134 | 99.5062 | 78.2651 | 5844 | 230 | 5844 | 29 | 7 | 24.1379 | |
| gduggal-snapfb | SNP | tv | segdup | homalt | 99.3840 | 99.6603 | 99.1093 | 91.8109 | 3227 | 11 | 3227 | 29 | 8 | 27.5862 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 61.3118 | 56.4815 | 67.0455 | 85.0085 | 61 | 47 | 59 | 29 | 28 | 96.5517 | |
| ghariani-varprowl | INDEL | I16_PLUS | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 73.0717 | 83.3333 | 65.0602 | 84.3396 | 55 | 11 | 54 | 29 | 28 | 96.5517 | |
| ghariani-varprowl | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | homalt | 98.9871 | 99.9318 | 98.0602 | 53.4268 | 1465 | 1 | 1466 | 29 | 19 | 65.5172 | |
| gduggal-snapvard | INDEL | D1_5 | lowcmp_SimpleRepeat_triTR_11to50 | homalt | 71.8529 | 57.2932 | 96.3338 | 35.0041 | 762 | 568 | 762 | 29 | 27 | 93.1034 | |
| gduggal-snapvard | SNP | ti | map_l100_m0_e0 | homalt | 97.3605 | 95.2148 | 99.6052 | 63.3538 | 7402 | 372 | 7316 | 29 | 23 | 79.3103 | |
| hfeng-pmm1 | INDEL | D6_15 | HG002complexvar | * | 97.1047 | 94.8887 | 99.4267 | 56.6618 | 5031 | 271 | 5029 | 29 | 25 | 86.2069 | |
| hfeng-pmm1 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_51to200bp_gt95identity_merged | homalt | 95.2809 | 97.0252 | 93.5982 | 46.7059 | 424 | 13 | 424 | 29 | 29 | 100.0000 | |
| hfeng-pmm1 | INDEL | I16_PLUS | * | het | 98.4241 | 97.9397 | 98.9135 | 73.5192 | 2662 | 56 | 2640 | 29 | 4 | 13.7931 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | homalt | 99.5273 | 99.6634 | 99.3915 | 39.2247 | 4737 | 16 | 4737 | 29 | 28 | 96.5517 | |
| hfeng-pmm3 | INDEL | D1_5 | lowcmp_SimpleRepeat_diTR_11to50 | homalt | 99.6691 | 99.7378 | 99.6004 | 35.1764 | 7228 | 19 | 7228 | 29 | 28 | 96.5517 | |
| hfeng-pmm3 | INDEL | I6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_all_gt95identity_merged | * | 96.4527 | 93.8414 | 99.2135 | 55.2222 | 3657 | 240 | 3658 | 29 | 24 | 82.7586 | |
| hfeng-pmm3 | SNP | tv | HG002complexvar | het | 99.7826 | 99.5854 | 99.9807 | 20.9857 | 150106 | 625 | 150027 | 29 | 6 | 20.6897 | |
| hfeng-pmm3 | SNP | tv | segdup | * | 99.7247 | 99.7890 | 99.6604 | 90.6553 | 8514 | 18 | 8510 | 29 | 5 | 17.2414 | |
| hfeng-pmm3 | INDEL | * | map_l100_m2_e0 | het | 98.4803 | 98.2228 | 98.7391 | 83.7628 | 2266 | 41 | 2271 | 29 | 5 | 17.2414 | |
| hfeng-pmm3 | INDEL | * | map_l100_m2_e1 | het | 98.5037 | 98.2501 | 98.7586 | 83.8596 | 2302 | 41 | 2307 | 29 | 5 | 17.2414 | |
| hfeng-pmm2 | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 96.8239 | 96.0191 | 97.6423 | 76.7662 | 1206 | 50 | 1201 | 29 | 6 | 20.6897 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l100_m1_e0 | het | 98.4026 | 99.1729 | 97.6442 | 83.5954 | 1199 | 10 | 1202 | 29 | 2 | 6.8966 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l100_m2_e0 | het | 98.4217 | 99.1242 | 97.7291 | 84.1426 | 1245 | 11 | 1248 | 29 | 2 | 6.8966 | |
| hfeng-pmm2 | INDEL | D1_5 | map_l100_m2_e1 | het | 98.4365 | 99.1325 | 97.7502 | 84.2651 | 1257 | 11 | 1260 | 29 | 2 | 6.8966 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | het | 98.9955 | 99.0692 | 98.9219 | 52.5490 | 2661 | 25 | 2661 | 29 | 0 | 0.0000 | |
| jlack-gatk | SNP | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | het | 98.6868 | 99.2734 | 98.1070 | 88.8808 | 1503 | 11 | 1503 | 29 | 14 | 48.2759 | |
| jli-custom | INDEL | * | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | * | 97.3931 | 96.1967 | 98.6197 | 73.1673 | 2074 | 82 | 2072 | 29 | 15 | 51.7241 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_SimpleRepeat_quadTR_11to50 | * | 98.9394 | 98.6710 | 99.2092 | 50.5195 | 3638 | 49 | 3638 | 29 | 26 | 89.6552 | |
| rpoplin-dv42 | INDEL | I16_PLUS | HG002compoundhet | homalt | 17.1429 | 100.0000 | 9.3750 | 81.1765 | 3 | 0 | 3 | 29 | 28 | 96.5517 | |
| rpoplin-dv42 | INDEL | I6_15 | lowcmp_SimpleRepeat_diTR_11to50 | * | 93.0561 | 88.0597 | 98.6537 | 62.4935 | 2124 | 288 | 2125 | 29 | 28 | 96.5517 | |
| rpoplin-dv42 | INDEL | D6_15 | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRlt7_lt51bp_gt95identity_merged | hetalt | 97.1701 | 95.0166 | 99.4235 | 24.0070 | 5167 | 271 | 5174 | 30 | 29 | 96.6667 | |
| rpoplin-dv42 | INDEL | I16_PLUS | * | homalt | 96.6889 | 95.3876 | 98.0263 | 58.4131 | 1489 | 72 | 1490 | 30 | 28 | 93.3333 | |
| rpoplin-dv42 | SNP | * | map_l100_m0_e0 | homalt | 99.3564 | 98.9759 | 99.7398 | 62.7443 | 11501 | 119 | 11501 | 30 | 27 | 90.0000 | |
| raldana-dualsentieon | SNP | ti | lowcmp_SimpleRepeat_quadTR_11to50 | het | 99.2264 | 98.9027 | 99.5522 | 39.1407 | 6670 | 74 | 6670 | 30 | 1 | 3.3333 | |
| raldana-dualsentieon | INDEL | I1_5 | lowcmp_AllRepeats_51to200bp_gt95identity_merged | * | 92.7835 | 87.9479 | 98.1818 | 64.9979 | 1620 | 222 | 1620 | 30 | 27 | 90.0000 | |
| mlin-fermikit | INDEL | I1_5 | lowcmp_SimpleRepeat_triTR_11to50 | het | 94.4878 | 95.3191 | 93.6709 | 57.5649 | 448 | 22 | 444 | 30 | 29 | 96.6667 | |
| mlin-fermikit | INDEL | I6_15 | map_siren | * | 81.7172 | 75.7377 | 88.7218 | 80.5981 | 231 | 74 | 236 | 30 | 28 | 93.3333 | |
| mlin-fermikit | SNP | ti | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_51to200bp_gt95identity_merged | homalt | 98.5545 | 99.7340 | 97.4026 | 53.7630 | 1125 | 3 | 1125 | 30 | 23 | 76.6667 | |
| mlin-fermikit | SNP | tv | lowcmp_Human_Full_Genome_TRDB_hg19_150331_TRgt6_lt101bp_gt95identity_merged | * | 98.5033 | 98.3901 | 98.6169 | 63.5523 | 2139 | 35 | 2139 | 30 | 19 | 63.3333 | |
| qzeng-custom | INDEL | D16_PLUS | segdup | * | 76.3496 | 93.1034 | 64.7059 | 94.9525 | 54 | 4 | 55 | 30 | 6 | 20.0000 | |
| qzeng-custom | INDEL | D1_5 | map_l100_m0_e0 | * | 86.8238 | 79.0267 | 96.3280 | 91.0593 | 682 | 181 | 787 | 30 | 23 | 76.6667 | |