bushmanplot: Create a stacked area plot that represents the abundance of...

In MultIS: Reconstruction of Clones from Integration Site Readouts and Visualization

Description

Create a stacked area plot that represents the abundance of integration sites over time.

Usage

bushmanplot(
  readouts,
  aes = NULL,
  col = NULL,
  only = NULL,
  rec = NULL,
  time = NULL,
  facet = NULL
)

Arguments

readouts	The readouts of the integration sites over time.
aes	An additional 'ggplot2::aes' object, that will be used as the plots main aesthetic. Note, that the 'geom_area' object overwrites some of these aesthetics. Useful if you later on want to add additional elements to the plot.
col	A color palette for integration sites that should be colored. Any integration site not in this named vector will be colored 'gray50'. This takes precedence over 'only' and 'rec'.
only	A list of integration sites that should be colored with the default ggplot2 color palette. Any other integration site is colored 'gray50'. Takes precedence over 'rec'.
rec	A matrix containing the columns "IS" and "Clone". Integration sites will be colored by the clone they belong to. The colors for the clones are the default ggplot2 ones.
time	A function that extracts the time component from the measurement (i.e. column)-names. Will be applied to the measurements.
facet	A function that extracts a value from the measurement names and splits the plot into different facets by that values. Useful, for example if you have measurements that are sorted for the cell type and you want to split these into facets.

MultIS documentation built on Aug. 6, 2021, 5:07 p.m.