plotwc: plotWC

In noriakis/wcGeneSummary: visualization and interpretation of textual information from omics summary data through network analysis

plotWC

Description

Plot the wordcloud changing the visualization parameters.

Usage

plotWC(
  x,
  tagPalette = NULL,
  madeUpper = c("dna", "rna"),
  preserve = FALSE,
  scaleFreq = NULL,
  fontFamily = "sans",
  numWords = NULL,
  wcScale = 10,
  argList = list(),
  useggwordcloud = TRUE,
  asis = FALSE
)

## S4 method for signature 'biotext'
plotWC(
  x,
  tagPalette = NULL,
  madeUpper = c("dna", "rna"),
  preserve = FALSE,
  scaleFreq = NULL,
  fontFamily = "sans",
  numWords = NULL,
  wcScale = 10,
  argList = list(),
  useggwordcloud = TRUE,
  asis = FALSE
)

Arguments

x	biotext object
tagPalette	tag palette when 'tag' is TRUE. It is also used for dependency network using udpipe, and tagging colorization for word cloud. Default to NULL, which indicates automatically set.
madeUpper	make these words uppercase in resulting plot, default to c("rna" and "dna")
preserve	Try to preserve original characters.
scaleFreq	default to NULL, scale the value if specified
fontFamily	font family to use, default to "sans".
numWords	the number of words to be shown in the plot. When 'autoThresh' is TRUE, the number of this value will be shown.
wcScale	scaling size for ggwordcloud
argList	parameters to pass to wordcloud() or ggwordcloud()
useggwordcloud	default to TRUE, otherwise use 'wordcloud' function.
asis	plot the original network (default to FALSE)

Details

The function accepts the already calculated biotext object and outputs the visualization based on the specified parameters.

Value

wordcloud visualization

Examples

geneList <- c("DDX41","PNKP","ERCC1","IRF3","XRCC1")
test <- refseq(geneList, plotType="wc")
plotWC(test, asis=TRUE)

noriakis/wcGeneSummary documentation built on April 22, 2024, 7:12 a.m.