plot.scanoneperm: Plot permutation results for a single-QTL genome scan

In kbroman/qtl: Tools for Analyzing QTL Experiments

Plot permutation results for a single-QTL genome scan

Description

Plot a histogram of the permutation results from a single-QTL genome scan.

Usage

## S3 method for class 'scanoneperm'
plot(x, lodcolumn=1, ...)

Arguments

x	An object of class "scanoneperm", as output by scanone when n.perm is specified.
lodcolumn	This indicates the LOD score column to plot. This should be a single number between 1 and the number of LOD columns in the object input.
...	Passed to the function hist when it is called.

Details

The function plots a histogram of the permutation results obtained by scanone when n.perm is specified. If separate permutations were performed for the autosomes and the X chromosome (using perm.Xsp=TRUE), separate histograms are given.

Value

None.

Author(s)

Karl W Broman, [e-mail]

See Also

scanone, summary.scanoneperm

Examples

data(fake.bc)
fake.bc <- calc.genoprob(fake.bc)

operm <- scanone(fake.bc, method="hk", n.perm=100)
plot(operm)

kbroman/qtl documentation built on Aug. 26, 2024, 12:33 a.m.