ap_cutoffs2image: Cutoff key image

In cekehe/rappp: QC, data transformation and visualization for PAPP

Cutoff key image

Description

Create a cutoff key for scoring of Autoimmunity Profiling data and also produce an image. Uses ap_cutoffs2()

Usage

ap_cutoffs2image(
  cutoffkey = NULL,
  MADlimits = NULL,
  padding = c(4, 6, 4, 1),
  signsyntax = "Unicode",
  shouldpng = TRUE,
  filename = "CutoffColorKey.png"
)

Arguments

cutoffkey	table matching output from ap_cutoffs2(), recommended input if ap_norm2() has been used.
MADlimits	vector of MADs values used as boundaries for binning (≥MADs), eg. seq(0,70,5). Not used if cutoffkey is provided.
padding	numerical vector of the form c(bottom, left, top, right), passed to graphical parameter mar.
signsyntax	string value of either "Unicode" or "Expression", determines mode of printing "greater or equal" to sign.
filename	string with filename and desired path, end with .png
shouldpdf	Logical, should it plot to png?

Value

If MADlimits is provided a data.frame with three columns will be returned:

[,1] MADs cutoff value

[,2] Corresponding score value

[,3] Corresponding color using the Zissou1 palette in wes_palette

cekehe/rappp documentation built on May 17, 2022, 8:54 a.m.