data structures for linkage disequilibrium measures in populations

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Documentation for package ‘ldblock’ version 1.39.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

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ldblock-package	c("\Sexpr[results=rd,stage=build]tools:::Rd_package_title(\"#1\")", "ldblock")data structures for linkage disequilibrium measures in populations
downloadPopByChr	download hapmap resource with LD estimates
EUR_singletons	singletons from EUR
expandSnpSet	Given a set of SNP identifiers, use LD to expand the set to include linked loci
hmld	import hapmap LD data and create a structure for its management; generates a sparse matrix representation of pairwise LD statistics and binds metadata on variant name and position
ldblock	c("\Sexpr[results=rd,stage=build]tools:::Rd_package_title(\"#1\")", "ldblock")data structures for linkage disequilibrium measures in populations
ldByGene	Obtain LD statistics in region specified by a gene model.
ldmat	use LDmat API from NCI LDlink service
ldmat-method	accessor for matrix component
ldstruct-class	container for LD data
s3_1kg	Create a URL referencing 1000 genomes content in AWS S3. stack1kg produces a VcfStack instance with references to VCF for 1000 genomes autosomal chrs. S3-resident VCF files with version "v5a.20130502" are used.
sampinf_1kg	population and relationship information for 1000 genomes
stack1kg	couple together a group of VCFs