Fast PCA for Large Pedigrees

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Documentation for package ‘randPedPCA’ version 1.1.2

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

Help Pages

dspc	Add downsampling index to rppca object
getNumVectorsHutchinson	Compute the number of vectors to use for Hutchinson trace estimation
hutchpp	Hutch++ trace estimation
importLinv	Generate spam object from L inverse file
pedLInv	L inverse matrix of the one-population example pedigree
pedLInv2	L inverse matrix of the two-population example pedigree
pedLInv4	L inverse matrix of the four-population example pedigree
pedMeta	Metadata associated with one-population example
pedMeta2	Metadata associated with the two-population example pedigree
pedMeta4	Metadata associated with the four-population example pedigree
plot3D	3D plot using rgl
plot3DWithProj	3D plot of PC scores with projections on coordinate planes
randRangeFinder	Generate range matrix for SVD
randSVD	Singular value decomposition in sparse triangular matrix
randTraceHutchinson	Trace estimation for sparse L inverse matrices
rppca	Fast pedigree PCA using sparse matrices and randomised linear algebra
rppca.pedigree	Fast pedigree PCA using sparse matrices and randomised linear algebra
rppca.spam	Fast pedigree PCA using sparse matrices and randomised linear algebra
sparse2spam	Convert generic sparse matrix to spam format