slidPlot {CAFE} | R Documentation

## Plot with sliding average smoother

### Description

Plots chromosome plots with a moving average smoother

### Usage

    slidPlot(datalist,samples=c(1,2),chromNum=1,combine=FALSE,k=1,idiogram=FALSE,file="default")

### Arguments

`datalist` | The CAFE datalist to be analyzed, i.e. the output of `ProcessCels`.
`samples` | A vector of sample numbers to be plotted
`chromNum` | The chromosome to be analyzed
`combine` | If `TRUE`, will plot the unaltered raw data in the background
`k` | The sliding window size. Must be a positive integer, smaller than the total number of probesets on the chromosome
`idiogram` | If `TRUE`, will plot a chromosome idiogram over the plot
`file` | Specify a file name to store output png fileS

### Value

Plot to file system; Returns a ggplot2 graph if `chromNum!="ALL"`. When `chromNum=="ALL"`, returns a list of ggplot2 graphs.

### Note

Makes heavy use of the ggplot2 package.

### Author(s)

Sander Bollen

### References

H. Wickham. ggplot2: elegant graphics for data analysis. Springer New York, 2009.

### See Also

`rawPlot` `facetPlot` `discontPlot`

### Examples

    data("CAFE_data")
    slidPlot(CAFE_data,samples=9,chromNum=17,k=50,combine=TRUE)

[Package CAFE version 1.16.0 Index]