This function creates a list of folders where are placed sources files for venn diagrams and call the eVenn function for each one.
autoevenn(FolderPath="", pathRes="", annot=TRUE, ud=TRUE, prop=FALSE, overlaps=FALSE,
display=FALSE, couleurs="", VennBar=FALSE, transp=0.5, filled=TRUE, Profils=FALSE,
ColorTxt="", colBlack=FALSE, Ptest=FALSE, tUD=NULL, tUDp=NULL, tnoUD=NULL,
Gtype="png", lw=1, NutShell=TRUE, VennClust=TRUE, OnlyVenn=FALSE)Path where are placed the source data folders.
Path used to save the results. The working directory is used by default.
If the compared files got more than one column (not only IDs).
If the source files comport a ratio or fold column the details of up and down regulated genes will be shown.
If the surfaces of the disks should be proportional to the size of the lists.
Compute the proportions of the overlaps for each couple of lists in two ways (A in B and B in A). A heatmap is created if at least three lists are processed.
Print commentaries during the process.
Vector of custom colours to be used in the graphics. Default colours: c("blue", "red", "green", "orange")
Represent the zones of a venn diagram with a bars chart even for more than 4 lists.
Percentage of transparency of the disks.
No transparancy, disks are filled with solid colours.
This option is valid only if the modulations (UD) are available (ie ratio column or each list) and a DataMoy.txt file containing the means of each group for all the items. The items will be separated by modulations profiles.
No color, only Black on a white background.
Custom color of the counts.
Proportional test (Fisher's exact) of the non null areas.
Font size of the count and profile names of specific zones.
Font size of the count and profile names of common zones.
Font size of the total count of a zone.
File format of the graphic (png or svg).
Line width relative to the default (default=1). 2 is twice as wide.
All the Venn zones and UD profiles in a nutshell (count table).
Creates two clusterings (using Spearman correlation similarity measure and average or Ward.D2 linkage algorithm) to model links between the lists.
Draw only the venn diagram without any text outside (remove the total and lists names).