Many existing cohorts contain a range of relatedness between genotyped individuals, either by design or by chance. Haplotype estimation in such cohorts is a central step in many downstream analyses. Using genotypes from six cohorts from isolated populations and two cohorts from non-isolated populations, we have investigated the performance of different phasing methods designed for nominally ‘unrelated ’ individuals. We find that SHAPEIT2 produces much lower switch error rates in all cohorts compared to other methods, including those designed specifically for isolated populations. In particular, when large amounts of IBD sharing is present, SHAPEIT2 infers close to perfect haplotypes. Based on these results we hav
High-throughput sequencing technologies produce short sequence reads that can contain phase informat...
High-throughput sequencing technologies produce short sequence reads that can contain phase informat...
In genome-wide association studies, results have been improved through imputation of a denser marker...
Many existing cohorts contain a range of relatedness between genotyped individuals, either by design...
Many existing cohorts contain a range of relatedness between genotyped individuals, either by design...
Many existing cohorts contain a range of relatedness between genotyped individuals, either by design...
<div><p>Many existing cohorts contain a range of relatedness between genotyped individuals, either b...
The UK Biobank (UKB) has recently released genotypes on 152,328 individuals together with extensive ...
The valuable information in correct order of alleles on the haplotypes has many applications in GWAS...
The valuable information in correct order of alleles on the haplotypes has many applications in GWAS...
The UK Biobank (UKB) has recently released genotypes on 152,328 individuals together with extensive ...
The UK Biobank (UKB) has recently released genotypes on 152,328 individuals together with extensive ...
The UK Biobank (UKB) has recently released genotypes on 152,328 individuals together with extensive ...
BACKGROUND: Knowledge of phase, the specific allele sequence on each copy of homologous chromosomes,...
High-throughput sequencing technologies produce short sequence reads that can contain phase informat...
High-throughput sequencing technologies produce short sequence reads that can contain phase informat...
High-throughput sequencing technologies produce short sequence reads that can contain phase informat...
In genome-wide association studies, results have been improved through imputation of a denser marker...
Many existing cohorts contain a range of relatedness between genotyped individuals, either by design...
Many existing cohorts contain a range of relatedness between genotyped individuals, either by design...
Many existing cohorts contain a range of relatedness between genotyped individuals, either by design...
<div><p>Many existing cohorts contain a range of relatedness between genotyped individuals, either b...
The UK Biobank (UKB) has recently released genotypes on 152,328 individuals together with extensive ...
The valuable information in correct order of alleles on the haplotypes has many applications in GWAS...
The valuable information in correct order of alleles on the haplotypes has many applications in GWAS...
The UK Biobank (UKB) has recently released genotypes on 152,328 individuals together with extensive ...
The UK Biobank (UKB) has recently released genotypes on 152,328 individuals together with extensive ...
The UK Biobank (UKB) has recently released genotypes on 152,328 individuals together with extensive ...
BACKGROUND: Knowledge of phase, the specific allele sequence on each copy of homologous chromosomes,...
High-throughput sequencing technologies produce short sequence reads that can contain phase informat...
High-throughput sequencing technologies produce short sequence reads that can contain phase informat...
High-throughput sequencing technologies produce short sequence reads that can contain phase informat...
In genome-wide association studies, results have been improved through imputation of a denser marker...