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Create instructions for giotto functions

createGiottoInstructions.Rd

Function to set global instructions for giotto functions

Usage

createGiottoInstructions(
  python_path = NULL,
  show_plot = NULL,
  return_plot = NULL,
  save_plot = NULL,
  save_dir = NULL,
  plot_format = NULL,
  dpi = NULL,
  units = NULL,
  height = NULL,
  width = NULL,
  is_docker = FALSE,
  plot_count = 0,
  fiji_path = NULL,
  no_python_warn = FALSE
)

Arguments

python_path

path to python binary to use

show_plot

print plot to console, default = TRUE

return_plot

return plot as object, default = TRUE

save_plot

automatically save plot, dafault = FALSE

save_dir

path to directory where to save plots

plot_format

format of plots (defaults to png)

dpi

resolution for raster images

units

units of format (defaults to in)

height

height of plots

width

width of plots

is_docker

using docker implementation of Giotto (defaults to FALSE)

plot_count

(global option) start count for creating automatic unique plots

fiji_path

path to fiji executable

no_python_warn

turn off warning that no compatible python env has been detected

Value

named vector with giotto instructions

See also

More online information can be found here https://rubd.github.io/Giotto_site/articles/instructions_and_plotting.html