coefplot: Plot the QTL model coefficients

In DOQTL: Genotyping and QTL Mapping in DO Mice

Description

Given a DOQTL object, plot the founder allele coefficients on one chromosome. The coefficients are centered around zero before plotting.

Usage

  coefplot(doqtl, chr = 1, stat.name = "LOD", conf.int = TRUE, legend = TRUE, 
  colors = "DO", sex, ...)

Arguments

doqtl	A DOQTL object as produced by scanone. A list containing two elements: lod and coef.
chr	Character containing the chromosome to plot.
stat.name	Character string containing the name of the mapping statistic.
conf.int	Boolean that is TRUE if the QTL support interval should be shaded in the plot. Default = TRUE.
legend	Boolean that is TRUE if the color legend for the DO founders should be drawn. Default = TRUE.
colors	Either "DO", in which case DO colors are supplied or a data.frame with three columns containing the founder letter code, founder strain name and founder color in columns 1:3.
sex	Character that is either FALSE or M, indicating the sex to use. Only used on X chromosome.
...	Additional arguments to be passed to plot.

Value

No value is returned. A plot with the founder coefficients in the top panel and the LOD score in the bottom panel is drawn.

Author(s)

Daniel Gatti

See Also

scanone, plot.doqtl

Examples

  ## Not run: 
    coefplot(qtl, chr = 1)
  
## End(Not run)

DOQTL documentation built on May 6, 2019, 3:09 a.m.