plot.errorlod {qtl}R Documentation

Plot grid of error LOD values

Description

Plot a grid showing the LOD scores indicating which genotypes are likely to be in error, including lines at the chromosome boundaries.

Usage

plot.errorlod(x,chr,...)

Arguments

x An object of class cross. See read.cross for details.
chr Indicates for which chromosomes the error LOD scores should be plotted.
... Ignored at this point.

Value

Uses image to plot a grid with different shades of pixels to indicate which genotypes are most likely to be in error. (Darker pixels have higher error LOD scores.)

Author(s)

Karl W Broman, kbroman@jhsph.edu
http://biosun01.biostat.jhsph.edu/~kbroman/software/qtl.html

References

SE Lincoln and ES Lander (1992) Systematic detection of errors in genetic linkage data. Genomics 14:604-610

See Also

image, calc.errorlod, top.errorlod, find.errors, plot.errors

Examples

data(fake.bc)
fake.bc <- calc.genoprob(fake.bc,error.prob=0.01)
fake.bc <- calc.errorlod(fake.bc,error.prob=0.01)
plot.errorlod(fake.bc)
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