plot.qb.scanone {qtlbim}R Documentation

Plot or print qb.scanone object.

Description

Plot or print marginal diagnostics of effects from a qb.scanone object.

Usage

print.qb.scanone(x, ...)
plot.qb.scanone(x, chr, smooth = 0, scan, ylim, scan.name, col, main,
  verbose = FALSE, ...)

Arguments

x An object of class qb.scanone.
chr Vector of chromosomes to plot. Must be integer.
smooth Perform smoothing. If O don't smooth. If larger, then smooth over smooth adjacent points.
scan The model effects to include, the default is all those included in the scanone object x.
ylim Limits for vertical (y) axis; default uses data limits.
scan.name Name used in automatically generated main title.
col Named vector of colors for plot. Names of colors correspond to effects to be plotted. Unnamed colors will be made "black".
main Main title for the plot
verbose Give verbose feedback if TRUE.
... Other values passed to the generic plot function.

Details

This plot method uses plot.scanone as the engine to plot marginal posterior diagnostics created with qb.scanone. When there are multiple effects in x, these may be organized into one or several stacked plots using scan. The default for most diagnostics except counts is scan = c("sum", "main", "epis"). Counts and posterior diagnostics are typically plotted in two stacked plots. Individual columns from the x object can be plotted by specifying their names as a vector to option scan.

Value

Colors used in plots as character vector.

Author(s)

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

References

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

See Also

qb.scanone, summary.qb.scanone, plot.scanone

Examples

example(qb.scanone)

[Package qtlbim version 1.6.0 Index]