R: Centrality and Clustering plots and tables

centrality and clustering plots {qgraph} | R Documentation

## Centrality and Clustering plots and tables

### Description

These functions can be used to facilitate interpreting centrality and clustering coefficients. The plot functions use ggplot2 (Wickham, 2009). The table functions create a long format table which can easilly be plotted in ggplot2.

### Usage

    centralityPlot(..., labels, scale = c("raw0", "raw", "z-scores", "relative"),
                     include =c("Degree","Strength","OutDegree","InDegree","OutStrength",
                     "InStrength"), theme_bw = TRUE, print = TRUE, verbose = TRUE,
                     standardized, relative, weighted = TRUE,signed = TRUE,
                     orderBy = "default", decreasing = FALSE)
    clusteringPlot(..., scale = c("raw0", "raw", "z-scores", "relative"), labels,
                      include , signed = FALSE, theme_bw = TRUE, print = TRUE,
                      verbose = TRUE, standardized, relative,orderBy = "default",
                      decreasing = FALSE)
    centralityTable(..., labels, standardized = TRUE,  relative = FALSE, weighted =
                     TRUE, signed = TRUE)
    clusteringTable(..., labels,  standardized = TRUE, relative = FALSE,
                    signed = FALSE)

### Arguments

`...` | Objects usuable in the `getWmat` generic, such as qgraph objects and weights matrices. Can also be lists containing these objects. Graphs in a list will be plotted in the same panel as different lines and graphs in seperate arguments will be plotted in seperate panels.
`scale` | Scale of the x-axis. `"z-scores"` to plot standardized coefficients, `"raw"` to plot raw coefficients, `"raw0"` to plot raw coefficients while including 0 on the x-axis and `"relative"` to show values on a relative scale from 0 (lowest) to 1 (highest).
`labels` | A vector overwriting the labels used. Can be missing.
`include` | A vector of measures to include. if missing all measures available will be included. Not included by default are `"Closeness"`, `"Betweenness"`, `"ExpectedInfluence"`, `"OutExpectedInfluence"`, and `"InExpectedInfluence"`. Can also be `"all"` or `"All"` to include all available centrality measures.
`theme_bw` | Adds the ggplot2 black and white theme to the plot
`print` | If `TRUE`, the plot is sent to the print command and returned invisible, if `FALSE` the plot is returned normally. Needed to include plots in e.g., pdf files.
`verbose` | Should messages be printed to the console?
`standardized` | Logical, should all measures be standardized? Argument is deprecated and will be removed.
`relative` | Logical, should all measures be scaled relative to the largest value? Argument is deprecated and will be removed.
`weighted` | Logical, set to `FALSE` to set all edge weights to 1 or -1
`signed` | Logical, set to `FALSE` to make all edge weights absolute
`orderBy` | String indicating which measure to order by. Can be default (alphabetical), or one of the measures plotted (e.g., `"Strength"`)
`decreasing` | Logical indicating if the nodes should be ordered increasing or decreasing

### Details

Note that under default setting the plot functions show the standardized centrality indices. That is, z-scores instead of raw centrality indices. This is done to allow easier comparison of multiple networks.

### Author(s)

Sacha Epskamp <mail@sachaepskamp.com> \& Jolanda Kossakowski

### References

H. Wickham. ggplot2: elegant graphics for data analysis. Springer New York, 2009.

[Package qgraph version 1.9.2 Index]