R: Generates and learns all networks for a set of variables.

networkfamily {deal}

R Documentation

Generates and learns all networks for a set of variables.

Description

Method for generating and learning all networks that are possible for a given set of variables. These may be plotted or printed. Also, functions for sorting according to the network score (see nwfsort) and for making a network family unique (see the unique method for networkfamily objects) are available.

Usage

networkfamily(data,nw=network(data), prior=jointprior(nw),
              trylist=vector("list",size(nw)), timetrace=TRUE) 

## S3 method for class 'networkfamily'
print(x,...)
## S3 method for class 'networkfamily'
plot(x,layout=,
        cexscale=5,arrowlength=0.1,sscale=7,...)

Arguments

`nw`	an object of class `network`. This should be the empty network for the set of variables.
`data`	a data frame used for learning the network, see `network`.
`prior`	a list containing parameter priors, generated by `jointprior`.
`trylist`	a list used internally for reusing learning of nodes, see `maketrylist`.
`timetrace`	a logical. If `TRUE`, prints some timing information on the screen.
`x`	an object of class `networkfamily`.
`layout`	a numeric two dimensional vector with the number of plots in the rows and columns of each plotting page. Default set to `rep(min(1+floor(sqrt(length(x))),5),2)`.
`cexscale`	a numeric. A scaling parameter to set the size of the nodes.
`arrowlength`	a numeric, which gives the length of the arrow heads.
`sscale`	a numeric. The nodes are initially placed on a circle with radius `sscale`.
`...`	additional plot arguments passed to the plot method for network objects.

Details

networkfamily generates and learns all possible networks with the nodes given as in the initial network nw. This is done by successively trying to generate the networks with all possible arrows to/from each node (see addarrows). If there is a ban list present in nw (see network), then this is respected, as are the restrictions described in insert.

After generation of all possible networks, a test for cycles (see cycletest) is performed and only networks with directed acyclic graphs are returned.

Value

The function networkfamily returns a list with two components,

`nw`	an object of class `networkfamily`.
`trylist`	an updated list used internally for reusing learning of nodes, see `maketrylist`.

Note

Generating all possible networks can be very time consuming!

Author(s)

Susanne Gammelgaard Bottcher,
Claus Dethlefsen rpackage.deal@gmail.com.

Examples

data(rats)
allrats <- getnetwork(networkfamily(rats))
plot(allrats)
print(allrats)

[Package deal version 1.2-42 Index]