ASRgenomics (version 1.1.4)

sparse2full: Generates a full matrix form from a sparse form matrix

Description

Modifies the input sparse form matrix into its full form. The sparse form has three columns per line, corresponding to the set: Row, Col, Value, and is defined by a lower triangle row-wise of the full matrix and is sorted as columns within row. Individual names should be assigned as attributes: attr(K, "rowNames") and attr(K, "colNames"). If these are not provided they are considered as 1 to \(n\).

Usage

sparse2full(K = NULL)

Value

A full square matrix where individual names are assigned to rownames and colnames. If attribute INVERSE is found this is also passed to the full matrix.

Arguments

K

A square matrix in sparse form (default = NULL).

Details

Based on a function from ASReml-R 3 library by Butler et al. (2009).

References

Butler, D.G., Cullis, B.R., Gilmour, A.R., and Gogel, B.J. 2009. ASReml-R reference manual. Version 3. The Department of Primary Industries and Fisheries (DPI&F).

Examples

# Get G matrix.
Gsp <- G.matrix(M = geno.apple, method = "VanRaden", sparseform = TRUE)$G.sparse
head(Gsp)
head(attr(Gsp, "rowNames"))

# Transform into full matrix.
G <- sparse2full(K = Gsp)
G[1:5, 1:5]