proxysnps is an R package that implements functions to get proxy SNPs
in linkage disequilibrium (LD) with a SNP in the 1000 Genomes
Project.
library(proxysnps)
d <- get_proxies(query = "rs42")
plot(d$POS, d$R.squared, main="rs42", xlab="Position", ylab=bquote("R"^2))
See the vignette for more usage examples.
install.packages("devtools")
devtools::install_github("slowkow/proxysnps")This package provides easy access to 1000 Genomes Project VCF files that have been filtered by Brian Browning, available here.
Please submit an issue to report bugs or ask questions.
Please contribute bug fixes or new features with a pull request to this repository.
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Also see the Statistical Genetics CRAN Task View for additional R packages.
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