R: Plot recombination fractions or LOD scores for a single...

plot.rfmatrix {qtl} | R Documentation

## Plot recombination fractions or LOD scores for a single marker

### Description

Plot a slice (corresponding to a single marker) through the pairwise recombination fractions or LOD scores calculated by `est.rf` and extracted with `pull.rf`.

### Usage

    ## S3 method for class 'rfmatrix'
    plot(x, marker, ...)

### Arguments

`x` | An object of class `rfmatrix`, as output by `pull.rf`.
`marker` | A single marker name, as a character string.
`...` | Optional arguments passed to `plot.scanone`.

### Value

An object of class `"scanone"` (as output by `scanone`, and which may be summarized by `summary.scanone` or plotted with `plot.scanone`), containing the estimated recombination fractions or LOD scores for the input marker against all others.

### Author(s)

Karl W Broman, kbroman@biostat.wisc.edu

### See Also

`pull.rf`, `est.rf`, `plotRF`

### Examples

    data(fake.f2)

    fake.f2 <- est.rf(fake.f2)
    marker <- markernames(fake.f2, chr=5)[6]
    lod <- pull.rf(fake.f2, "lod")
    plot(lod, marker, bandcol="gray70")

[Package qtl version 1.41-6 Index]