qtl (version 0.85-4)

plot.errorlod: 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.)

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)
<testonly>data(fake.f2)</testonly>
<testonly>fake.f2 <- calc.errorlod(fake.f2)</testonly>
<testonly>plot.errorlod(fake.f2)</testonly>