plot_maps: Plot NanoSIMS ion maps
In KopfLab/lans2r: Work with Look at NanoSIMS Data in R

View source: R/plotting.R

plot_maps

R Documentation

Plot NanoSIMS ion maps

Description

Helps to plot the ion maps exported and loaded from LANS. Can overlay the ROI boundaries for clarity as well. Note that this does not currently support any smoothing yet so plotting ratios or abundances will most likely not work well because individual pixels have extreme values.

Usage

plot_maps(
  data,
  draw_ROIs = TRUE,
  normalize = TRUE,
  color_scale = c("black", "white")
)

Arguments

`data`	the ion maps data frame
`draw_ROIs`	whether to draw in the ROIs or not (default TRUE)
`normalize`	whether to normalize the intensity scale for each panel (default TRUE)
`color_scale`	what color scale to use for high and low intensity, default is black & white