tsne_perp: tSNE plots with different perplexities

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

tSNE plots with different perplexities

Description

tSNE plots with different perplexities and designs.

Usage

tsne_perp(
  z,
  perp = c(2, 5, 10, 50),
  sqrt = TRUE,
  iterations = 1000,
  groups,
  names,
  legend = T,
  legendname = NULL,
  main = NULL,
  filename = "t-SNE_perplexities.pdf",
  height = 16,
  useDingbats = F
)

Arguments

z	the data as a data.frame
perp	a vector of values to test as perplexities, eg. c(2,5,10,50).
sqrt	logical, should sqrt(Nsamples) be added to perplexities? Potentially the lowest needed perplexity.
iterations	number of iterations per tSNE
groups	grouping for colors and lines
names	text to display as point labels
legend	TRUE or FALSE
legendname	Title of legend
main	Title of page
filename	String with filename and desired path, end with .pdf
height	height for pdf, see pdf().
useDingbats	Logical. Default is FALSE, compared to in default pdf().

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