snpCorrelationPlot {GWASTools} | R Documentation

## SNP correlation plot

### Description

Plots SNP correlation versus chromosome.

### Usage

    snpCorrelationPlot(correlations, chromosome,
                       ylim=c(0,1), ylab = "abs(correlation)", ...)

### Arguments

`correlations` | A vector of correlations.
`chromosome` | A vector containing the chromosome for each SNP.
`ylim` | The limits of the y axis.
`ylab` | The label for the y axis.
`...` | Other parameters to be passed directly to `plot`.

### Details

Plots SNP correlations (from, e.g., PCA), versus chromosome.

`correlations` must have the same length as `chromosome` and is assumed to be in order of position on each chromosome. Values within each chromosome are evenly spaced along the X axis.

### Author(s)

Cathy Laurie

### See Also

`manhattanPlot`

### Examples

    correlations <- sample(0.001*(0:1000), 1000, replace=TRUE)
    chromosome <- c(rep(1,400), rep(2,350), rep("X",200), rep("Y",50))
    snpCorrelationPlot(correlations, chromosome)

[Package GWASTools version 1.28.0 Index]