A matrix containing numeric indicators of the inferred genotypes.
Multiple chromosomes are pasted together.
Arguments
cross
An object of class cross. See
read.cross for details.
chr
Optional vector indicating the chromosomes to consider.
This should be a vector of character strings referring to chromosomes
by name; numeric values are converted to strings. Refer to
chromosomes with a preceding - to have all chromosomes but
those considered. A logical (TRUE/FALSE) vector may also be used.
include.pos.info
If TRUE, include columns with marker name,
chromosmoe ID, and cM position. (If include.pos.info=TRUE, we
take rotate=TRUE.)
rotate
If TRUE, return matrix with individuals as columns and
positions as rows. If FALSE, rows correspond to individuals.