chr_coverage_plot: Average chromosome signal (coverage) dot plot
In luisvalesilva/hwglabr: Collection of R functions used in the Hochwagen Lab

Description Usage Arguments Value Examples

This function allows you to plot average chromosome signal for one or two selected samples. It takes as input the output of chr_coverage (16x2 R data frame).

1 2	chr_coverage_plot(coverageDataA, coverageDataB, genome, meanNorm = FALSE, yMax, onScreen = TRUE, fileName, colorA = "grey50", colorB = "green")

`coverageDataA`	A 16x2 data frame of coverage: chromosome and average signal. No default.
`coverageDataB`	Optional 16x2 data frame of coverage: chromosome and average signal. No default.
`genome`	A string representing the genome used for mapping. No default.
`meanNorm`	Boolean indicating whether input data are normalized to genome-wide averages (`meanNorm = TRUE`). If so, a line is added at `y = 1`. Defaults to FALSE.
`yMax`	Optional number to be used as the max Y scale value in the plots. No default.
`onScreen`	Boolean indicating plots should be returned to the screen (`onScreen = TRUE`) or written to .pdf files (`onScreen = FALSE`). Defaults to `TRUE`.
`fileName`	A string to name the output .pdf file in case (`onScreen = FALSE`). No default.
`colorA`	Optional R color for sample A. Defaults to `grey50`.
`colorB`	Optional R color for sample B. Defaults to `green`.

A dot plot of one or two samples, either on screen or as a .pdf file (in the working directory).

## Not run: 
chr_coverage_plot(WT, rec8, genome = 'SK1', onScreen = TRUE, colorB = 'red')

chr_coverage_plot(WT, dot1, genome = 'S288C', meanNorm = TRUE,
                  onScreen = FALSE, fileName='chr_coverage_WT_and_dot1.pdf')

## End(Not run)