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Plot the matrices corresponding to a Multipartite Network

Source: R/plotMyMultipartiteMatrix.R
plotMyMultipartiteMatrix.Rd

Plot the matrices corresponding to a Multipartite Network

Usage

plotMyMultipartiteMatrix(listSBM, memberships = NULL, plotOptions = list())

Arguments

listSBM

: a list of objects representing the multipartite network (see)

memberships

: a list of length equal to the number of Functional Groups providing the clusterings inside each group.

plotOptions

: a list containing the options. See details.

Value

a ggplot object corresponding to the plot

Details

plotOptions is a list containing the following items

  • "normalized": Boolean. TRUE if the various matrices are presented in the same scale (between O and 1). FALSE otherwise. Default value FALSE

  • "compact": Boolean. Default value is TRUE if you ask for the matrices to be transposed to have a more compact view

  • "legend": Boolean. Set TRUE if you want to see the legend. Default value is FALSE

  • "legend.title": Boolean. Set TRUE if you want to print the title of the legend. Default value is FALSE

  • "legend.position": Position of the legend. Possible values are 'bottom', 'top','left,'right'. Default value is 'bottom'

  • "nodeNames": Set true if the node Names must be plotted. Default value is FALSE

  • "line.color": The color of the lines to separate groups. Default value is red

  • "line.width": Width of the lines to separate groups. Default value is NULL, automatically chosen

  • "title": Title of the plot. Default value is NULL

  • "names.size": Numeric. Size (in pts) of the node names. Default value is NULL: the size decreases with the number of nodes

  • "blockBackground": Boolean. Color the background of each block, with an opacity growing with the mean value of the entries in the block. Only used when a clustering is provided. Default value is TRUE

  • "graphonColors": Boolean. Color the entries with the colors of the graphon (from blockAlpha.min to blockAlpha.max opacity of block.color) instead of white to black. Ignored for binary matrices. Default value is FALSE

  • "block.color": Chain of character. The color of the block background. Default value is red

  • "blockAlpha.min", "blockAlpha.max": Numeric. Opacity of the least and most dense blocks. Default values are 0.1 and 0.6

Examples

data("multipartiteEcologicalNetwork")
Net <- multipartiteEcologicalNetwork
type='bipartite'
model = 'bernoulli'
directed = FALSE
listNet <- list()
listNet[[1]] = defineSBM(Net$Inc_plant_ant,
                         model,type,directed,
                         dimLabels = c(row = "Plants", col = "Ants"))
listNet[[2]] = defineSBM(Net$Inc_plant_bird,model,type,directed,
                      dimLabels =c(row = "Plants",col = "Birds"))
plotMyMultipartiteMatrix(listNet,plotOptions=list(legend = TRUE,title='Ecology'))


listNet <- list()
listNet[[1]] <- defineSBM(matrix(rbinom(1000,1,0.5),20,50),
                   model = 'bernoulli',
                   type  ='bipartite', directed = NA,
                   dimLabels = c(row="Questions",col="Students"))
listNet[[2]] <- defineSBM(matrix(rpois(20*30,8),30,20),
                   model = 'poisson',
                   type  ='bipartite',directed = NA,
                   dimLabels = c(row="Competences",col="Questions"))
plotMyMultipartiteMatrix(listNet,plotOptions=list(legend = TRUE,compact = FALSE))

plotMyMultipartiteMatrix(listNet,plotOptions=list(legend = TRUE,normalized =  TRUE))