geno.image {qtl} | R Documentation |
Plot a grid showing which the genotype data in a cross.
geno.image(x, chr, reorder=FALSE, main="Genotype data", alternate.chrid=FALSE, ...)
x |
An object of class cross . See
read.cross for details. | ||||||
chr |
Optional vector indicating the chromosomes to be drawn in
the plot. 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. | ||||||
reorder |
Specify whether to reorder individuals according to
their phenotypes.
| ||||||
main |
Title to place on plot. | ||||||
alternate.chrid |
If TRUE and more than one chromosome is plotted, alternate the placement of chromosome axis labels, so that they may be more easily distinguished. | ||||||
... |
Ignored at this point. |
Uses image
to plot a grid with the genotype
data. The genotypes AA, AB, BB are displayed in the colors red, blue,
and green, respectively. In an intercross, if there are genotypes
"not BB" and "not AA", these are displayed in purple and orange,
respectively. White pixels indicate missing data.
None.
Karl W Broman, kbroman@biostat.wisc.edu
plot.cross
,
plot.missing
, plot.geno
,
image
data(listeria) geno.image(listeria)