# graphviz.chart: Plotting networks with probability bars In bnlearn: Bayesian Network Structure Learning, Parameter Learning and Inference

 graphviz.chart R Documentation

## Plotting networks with probability bars

### Description

Plot a Bayesian network as a graph whose nodes are barplots representing the marginal distributions of the corresponding variables. Requires the Rgraphviz and gRain packages.

### Usage

``````graphviz.chart(x, type = "barchart", layout = "dot", draw.labels = TRUE,
grid = FALSE, scale = c(0.75, 1.1), col = "black", bg = "transparent",
text.col = "black", bar.col = "black", strip.bg = bg, main = NULL,
sub = NULL)
``````

### Arguments

 `x` an object of class `bn.fit`. `type` a character string, the type of graph used to plot the probability distributions in the nodes. Possible values are `barchart`, `dotplot` and `barprob` (a barchart with parameter values printed over the bars). `layout` a character string, the layout argument that will be passed to Rgraphviz. Possible values are `dots`, `neato`, `twopi`, `circo` and `fdp`. See Rgraphviz documentation for details. `draw.labels` a boolean value, whether to print the labels of the parameters of each variable. `grid` a boolean value, whether to draw to a reference grid for the probability distributions. If `grid` is `TRUE`, a vertical grid is drawn at probabilities `c(0, 0.25,` `0.50, 0.75)` for discrete nodes, and at the quartiles of the regression coefficients range for continuous nodes. If `grid` is a numeric vector, a verical grid is drawn at the specified values. If grid is a named list, each element is a set of grid points can be specificed for the corresponding node. `scale` a vector of two positive numbers, used by Rgraphviz to determine the size and the aspect ratio of the nodes. `col`, `bg`, `text.col`, `bar.col`, `strip.bg` the colours of the node border, of the barchart background, of the text, of the bars and of the strip background. `main` a character string, the main title of the graph. It's plotted at the top of the graph. `sub` a character string, a subtitle which is plotted at the bottom of the graph.

### Value

`graphviz.chart()` invisibly returns `NULL`.

Marco Scutari

### Examples

``````## Not run:
modelstring = paste("[HIST|LVF][CVP|LVV][PCWP|LVV][HYP][LVV|HYP:LVF][LVF]",
"[STKV|HYP:LVF][ERLO][HRBP|ERLO:HR][HREK|ERCA:HR][ERCA][HRSA|ERCA:HR][ANES]",
"[APL][TPR|APL][ECO2|ACO2:VLNG][KINK][MINV|INT:VLNG][FIO2][PVS|FIO2:VALV]",
"[MVS][VMCH|MVS][VTUB|DISC:VMCH][VLNG|INT:KINK:VTUB][VALV|INT:VLNG][ACO2|VALV]",
"[CCHL|ACO2:ANES:SAO2:TPR][HR|CCHL][CO|HR:STKV][BP|CO:TPR]", sep = "")
dag = model2network(modelstring)
fitted = bn.fit(dag, alarm)

# Netica style.
graphviz.chart(fitted, grid = TRUE, bg = "beige", bar.col = "black")
# Hugin style.
graphviz.chart(fitted, type = "barprob", grid = TRUE, bar.col = "green",
strip.bg = "lightyellow")
# GeNIe style.
graphviz.chart(fitted, col = "darkblue", bg = "azure", bar.col = "darkblue")
# personal favourites.
graphviz.chart(fitted, type = "barprob", grid = TRUE, bar.col = "darkgreen",
strip.bg = "lightskyblue")
graphviz.chart(fitted, type = "barprob", grid = TRUE, bar.col = "gold",
strip.bg = "lightskyblue")
# dot-plot version.
graphviz.chart(fitted, type = "dotplot")

## End(Not run)
``````

bnlearn documentation built on May 29, 2024, 5:07 a.m.