print.nacho: Print method for "nacho" object
In NACHO: NanoString Quality Control Dashboard

print.nacho

R Documentation

Print method for "nacho" object

Description

This function allows to print text and figures from the results of a call to load_rcc() or normalise(). It is intended to be used in a Rmarkdown chunk.

Usage

## S3 method for class 'nacho'
print(
  x,
  colour = "CartridgeID",
  size = 0.5,
  show_legend = FALSE,
  show_outliers = TRUE,
  outliers_factor = 1,
  outliers_labels = NULL,
  echo = FALSE,
  title_level = 1,
  xaringan = FALSE,
  ...
)

Arguments

`x`	[list] A list object of class `"nacho"` obtained from `load_rcc()` or `normalise()`.
`colour`	[character] Character string of the column in `ssheet_csv` or more generally in `nacho_object$nacho` to be used as grouping colour.
`size`	[numeric] A numeric controlling point size (`ggplot2::geom_point()` or line size (`ggplot2::geom_line()`).
`show_legend`	[logical] Boolean to indicate whether the plot legends should be plotted (`TRUE`) or not (`FALSE`). Default is `TRUE`.
`show_outliers`	[logical] Boolean to indicate whether the outliers should be highlighted in red (`TRUE`) or not (`FALSE`). Default is `TRUE`.
`outliers_factor`	[numeric] Size factor for outliers compared to `size`. Default is `1`.
`outliers_labels`	[character] Character to indicate which column in `nacho_object$nacho` should be used to be printed as the labels for outliers or not. Default is `NULL`.
`echo`	[logical] A boolean to indicate whether text and plots should be printed. Mainly for use within a Rmarkdown chunk.
`title_level`	[numeric] A numeric to indicate the title level to start with, using markdown style, i.e., the number of `"#"`.
`xaringan`	[logical] A boolean to format output for Xaringan slides.
`...`	Other arguments (Not used).