sparse2full {ASRgenomics}

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)

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).

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.

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]