get_vennlist {MicrobiotaProcess} | R Documentation |
generate a vennlist for VennDiagram
get_vennlist(obj, ...) ## S4 method for signature 'phyloseq' get_vennlist(obj, factorNames, ...) ## S4 method for signature 'data.frame' get_vennlist(obj, sampleinfo = NULL, factorNames = NULL, ...)
obj |
phyloseq, phyloseq class or data.frame a dataframe contained one character column and the others are numeric. or all columns should be numeric if sampleinfo isn't NULL. |
..., |
additional parameters |
factorNames |
character, a column name of sampleinfo, when sampleinfo isn't NULL, factorNames shouldn't be NULL, default is NULL, when the input is phyloseq, the factorNames should be provided. |
sampleinfo |
dataframe; a sample information, default is NULL. |
return a list for VennDiagram.
Shuangbin Xu
data(test_otu_data) vennlist <- get_vennlist(test_otu_data, factorNames="group") vennlist #library(VennDiagram) #venn.diagram(vennlist, height=5, # width=5, filename = "./test_venn.pdf", # alpha = 0.85, fontfamily = "serif", # fontface = "bold",cex = 1.2, # cat.cex = 1.2, cat.default.pos = "outer", # cat.dist = c(0.22,0.22,0.12,0.12), # margin = 0.1, lwd = 3, # lty ='dotted', # imagetype = "pdf")