vennDiag {RNAither} | R Documentation |
Plots a Venn Diagram of up to three binary hit vectors.
vennDiag(header, listOfCols, listOfNames, plotTitle, showPlot)
header |
the header of a dataset file generated with generateDatasetFile |
listOfCols |
a list of binary hit vectors to compare |
listOfNames |
a list of character strings for the annotation of the Venn Diagram |
plotTitle |
the plot title |
showPlot |
0 or 1. 1 will open one or several plot windows in the R GUI, 0 will only save the plot(s) without opening windows |
The plot is saved in a pdf and a png file named after the experiment name specified in the header concatenated with the plotTitle
.
The function returns the plot name.
data(exampleHeader, package="RNAither") data(pValVec1, package="RNAither") data(pValVec2, package="RNAither") data(scoredDataset1, package="RNAither") data(scoredDataset2, package="RNAither") ##for details on the generation of pValVec and scoredDataset, ##see the examples of the functions Ttest and MannWhitney linked above. scoredHits1 <- hitselectionPval(scoredDataset1, pValVec1, "SigIntensity", "pValue.ttest_l", 0.05, "GeneName", "pvalue_testfile1.txt") scoredHits2 <- hitselectionPval(scoredDataset2, pValVec2, "SigIntensity", "pValue.mannwhitney_l", 0.05, "GeneName", "pvalue_testfile2.txt") hitvector1 <- scoredHits1[[2]] hitvector2 <- scoredHits2[[2]] plot_name <- vennDiag(header, list(hitvector1, hitvector2), list("t test", "Mann-Whitney test"), "Venn diagram", 1)