plot.qb.epistasis {qtlbim}R Documentation

Density Plots for Models Showing Epistasis

Description

Produces density plots of models showing epsistasis. The vertical axis shows degree of epstatic effect, horizontal axis shows identities of pairs. Paralell plots are produced for each of the entries in the effects parameter.

Usage

qb.epistasis(qbObject, effects = c("aa", "ad", "da", "dd"),
  cutoff = 1, maxpair = 5, pairs, ...)
## S3 methods.
plot.qb.epistasis(x, effects = c("aa", "ad", "da", "dd"), cex = 0.5, ... )
print.qb.epistasis(x, ... )
summary.qb.epistasis(object, ... )

Arguments

qbObject An object of class qb.
object Object of class qb.epistasis.
x Object of class qb.epistasis.
cutoff The cutoff parameter for number of epistatic pairs.
maxpair Maximum number of epistatic pairs shown.
pairs A list of chromosome pairs to examing for epistatic pairs. The default uses chromosome names separated by a dot.
effects Paralell plots are produced for each of the entries in the effects.
cex Horizontal expansion factor for characters in the plot. See par.
... Arguments passed to generic plot.

Value

Returns a table of counts of epistatic pairs with counts above the cutoff value.

Author(s)

Brian S. Yandell, yandell@stat.wisc.edu

References

http://www.ssg.uab.edu/qtlbim

Examples


temp <- qb.epistasis(qbExample)
summary(temp)
plot(temp)

[Package qtlbim version 1.6.0 Index]