snp.freqs: Pairwise haplotype frequencies for 4 SNP loci
In asymLD: Asymmetric Linkage Disequilibrium (ALD) for Polymorphic Genetic Data
Description
Usage
Format
Details
Source
References
Description
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.
Usage
1
Format
A data frame with 20 observations on the following 5 variables.
locus1a character vector
locus2a character vector
allele1a character vector
allele2a character vector
haplo.freqa numeric vector
Details
For bi-allelic SNP data the ALD measures are symmetric and equivalent to the r correlation measure of LD.
Source
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.
References
http://www.broadinstitute.org/mpg/tagger/mhc.html
asymLD documentation built on May 2, 2019, 6:14 a.m.
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Description Usage Format Details Source References
Description
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.
Usage
1 |
Format
A data frame with 20 observations on the following 5 variables.
locus1a character vector
locus2a character vector
allele1a character vector
allele2a character vector
haplo.freqa numeric vector
Details
For bi-allelic SNP data the ALD measures are symmetric and equivalent to the r correlation measure of LD.
Source
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.
References
http://www.broadinstitute.org/mpg/tagger/mhc.html
R Package Documentation
Browse R Packages
We want your feedback!
Note that we can't provide technical support on individual packages. You should contact the package authors for that.
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