snp.freqs


HLA haplotype frequencies for 6 pairs of SNP loci from the de Bakker et al. 2006 data for 90 unrelated individuals with European ancestry (CEU) from the Centre d'Etude du Polymorphisme Humain (CEPH)
collection obtained from the Tagger/MHC webpage.


data

Computes asymmetric LD measures (ALD) for multi-allelic genetic data. These measures are identical to the correlation measure (r) for bi-allelic data.

Richard M Single

asymLD

Asymmetric Linkage Disequilibrium (ALD) for Polymorphic Genetic
Data

snp.freqs function

A data frame with 20 observations on the following 5 variables.
  <dl>
    <dt><code>locus1</code></dt><dd>a character vector</dd> <dt><code>locus2</code></dt><dd>a character vector</dd> <dt><code>allele1</code></dt><dd>a character vector</dd> <dt><code>allele2</code></dt><dd>a character vector</dd> <dt><code>haplo.freq</code></dt><dd>a numeric vector</dd> </dl>

Format

de Bakker, P. I., G. McVean, P. C. Sabeti, M. M. Miretti, T. Green et al., 2006 A high-resolution HLA and SNP haplotype map for disease association studies in the extended human MHC. Nat.Genet. 38: 1166-1172.

snp.freqs: Pairwise haplotype frequencies for 4 SNP loci

Description

Usage

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Source

Details

References