A Suite of Packages for Analysis of Big Genomic Data

Documentation for package ‘BGData’ version 2.1.0

BGData-package	A Suite of Packages for Analysis of Big Genomic Data.
as.BGData	Convert Other Objects to BGData Objects.
as.BGData.BEDMatrix	Convert Other Objects to BGData Objects.
as.BGData.ColumnLinkedMatrix	Convert Other Objects to BGData Objects.
as.BGData.RowLinkedMatrix	Convert Other Objects to BGData Objects.
BGData	An S4 Class to Represent Phenotype and Genotype Data.
BGData-class	An S4 Class to Represent Phenotype and Genotype Data.
chunkedApply	Applies a Function on Each Row or Column of a File-Backed Matrix.
chunkedMap	Applies a Function on Each Chunk of a File-Backed Matrix.
findRelated	Find related individuals in a relationship matrix.
findRelated.matrix	Find related individuals in a relationship matrix.
findRelated.symDMatrix	Find related individuals in a relationship matrix.
geno-class	An Abstract S4 Class Union of Matrix-Like Types.
getG	Computes a Genomic Relationship Matrix.
getG_symDMatrix	Computes a Very Large Genomic Relationship Matrix.
GWAS	Performs Single Marker Regressions Using BGData Objects.
initialize-method	Creates a New BGData Instance.
load.BGData	Loads BGData (and Other) Objects from .RData Files.
orderedMerge	Merge Two Data Frames Keeping the Order of the First
readRAW	Creates a BGData Object From a .raw File or a .ped-Like File.
readRAW_big.matrix	Creates a BGData Object From a .raw File or a .ped-Like File.
readRAW_matrix	Creates a BGData Object From a .raw File or a .ped-Like File.
summarize	Generates Various Summary Statistics.