Description Usage Arguments Value Examples
wordlcoudPlot Plot GO reduced terms as a wordcloud.
1 | wordcloudPlot(reducedTerms, onlyParents = TRUE, ...)
|
reducedTerms |
a data.frame with the reduced terms from reduceSimMatrix(). |
onlyParents |
use only parent terms to calculate frequencies. |
... |
other parameters sent to wordcloud::wordcloud() |
Nothing
1 2 3 4 5 | go_analysis <- read.delim(system.file("extdata/example.txt", package="rrvgo"))
simMatrix <- calculateSimMatrix(go_analysis$ID, orgdb="org.Hs.eg.db", ont="BP", method="Rel")
scores <- setNames(-log10(go_analysis$qvalue), go_analysis$ID)
reducedTerms <- reduceSimMatrix(simMatrix, scores, threshold=0.7, orgdb="org.Hs.eg.db")
wordcloudPlot(reducedTerms, min.freq=1, colors="black")
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