vj_across_reps: Plot comparing V,J usage across repertoires
In LSSI-ETH/Ehling_Covid_2021: Plotting functions for Ehling_2021 (Cell Reports)

Description Usage Arguments Value Examples

Plot comparing V,J usage across repertoires

vj_across_reps(
  list_repertoires,
  rep_category,
  chain = "H",
  freq_threshold = 0.01,
  unique_rows = TRUE,
  size_x_axis = 5,
  size_y_axis = 5,
  figure_path,
  plot_name = "",
  color_scale
)

`list_repertoires`	List of repertoires
`rep_category`	Metadata
`chain`	Heavy (H) or Light (L)
`freq_threshold`	threshold above which V,J genes are plotted
`unique_rows`	If true all duplicated rows are excluded
`size_x_axis`	Size of text on x-axis
`size_y_axis`	Size of text on y-axis
`figure_path`	Path to which figure is saved
`plot_name`	ID of analysis for plot naming
`color_scale`	Color scale to be applied

TRUE (plots saved as pdfs into path_figures)

1	vj_across_reps(list_repertoires,rep_category,chain="H",freq_threshold=0.01,unique_rows=TRUE,size_x_axis=5,size_y_axis=5,figure_path,plot_name="",color_scale)