Add log transformations to graphs

Source: R/plot_logscales.R

This function allows "log10" or "log2" transformation of X or Y axes. With "log10" transformation, log10 ticks are also added on the outside.

plot_logscale(
  Plot,
  LogYTrans = "log10",
  LogXTrans,
  LogYBreaks = waiver(),
  LogXBreaks = waiver(),
  LogYLimits = NULL,
  LogXLimits = NULL,
  LogYLabels = waiver(),
  LogXLabels = waiver(),
  fontsize = 22,
  ...
)

Arguments

Plot

a ggplot2 object.

LogYTrans

transform Y axis into "log10" (default) or "log2"

LogXTrans

transform X axis into "log10" or "log2"

LogYBreaks

argument for scale_y_continuous for Y axis breaks on log scales, default is waiver(), or provide a vector of desired breaks.

LogXBreaks

argument for scale_x_continuous for Y axis breaks on log scales, default is waiver(), or provide a vector of desired breaks.

LogYLimits

a vector of length two specifying the range (minimum and maximum) of the Y axis.

LogXLimits

a vector of length two specifying the range (minimum and maximum) of the X axis.

LogYLabels

argument for scale_y_continuous for Y axis labels on log scales, default is waiver(), or provide a vector of desired labels.

LogXLabels

argument for scale_x_continuous for Y axis labels on log scales, default is waiver(), or provide a vector of desired labels.

fontsize

this parameter sets the linewidth of the log10 tickmarks (8*fontsize/22 for long ticks and 4*fontsize/22 for middle ticks). It is set to 20 as default to be consistent with rest of grafify. It will need to be changed to 12, which is the default fontsize for graphs produced natively with ggplot2.

...

any other arguments to pass to scale_y_continuous or scale_x_continuous

Value

This function returns a ggplot2 object of class "gg" and "ggplot".

Details

Arguments allow for axes limits, breaks and labels to passed on.

Examples

#save a ggplot object
P <- ggplot(data_t_pratio, 
aes(Genotype,Cytokine))+
geom_jitter(shape = 21, 
size = 5, width = .2, 
aes(fill = Genotype), 
alpha = .7)
#transform Y axis
plot_logscale(Plot = P)


#or in one go 
plot_logscale(ggplot(data_t_pratio, 
aes(Genotype,Cytokine))+
geom_jitter(shape = 21, 
size = 5, width = .2, 
aes(fill = Genotype), 
alpha = .7))