R: Plot permutation results for a single-QTL genome scan

plot.scanoneperm {qtl} | R Documentation

## 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, kbroman@biostat.wisc.edu

### 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)

[Package qtl version 1.41-6 Index]