pathfinder.conceptmaps {comato}

Creating a Pathfinder network from a conceptmaps object

Description

pathfinder creates the Pathfinder network from a given set of conceptmaps. The conecpts of each concept map are unified, then the concept maps are transformed into a weight matrix and pathfinder.matrix is called on the data.

Usage

## S3 method for class 'conceptmaps'
pathfinder(data, q = 2, r = 1, threshold = 0,
  directed = F, prune.edges = F, return.cm = F, filename = "", ...)

Arguments

data

A conceptmaps object.

q

The parameter q used in the Pathfinder algorithm. The resulting graph will be q-triangular.

r

The parameter r used in the Pathfinder algorithm for the r-metric.

threshold

A numeric value used for pruning the graph before the Pathfinder algorithm. The pruning works in conjunction with the value of prune.edges.

directed

if TRUE, the direction of the edges will be kept and the resulting Pathfinder network will be directed as well.

prune.edges

If TRUE, each entry of the weight matrix that is lower than threshold will be set to 0 and columns with a resulting sum of 0 are removed. If FALSE, only columns of the weight matrix with a sum of less than threshold will be removed.

return.cm

If TRUE, a conceptmap object will be returned. Otherwise, an igrpah object will be returned.

filename

Optional. If specified, the resulting Pathfinder network will be stored in TGF format in the given file.

...

-

Value

Depending on return.cm either an igraph object or a conceptmap object that represents the Pathfinder network. If an igraph object is returned, the graph will be weighted.

Examples

#Create concept maps from three random graphs
require("igraph")
g1 = set.vertex.attribute(erdos.renyi.game(5, 0.7, type="gnp"), "name", value=1:5)
g2 = set.vertex.attribute(erdos.renyi.game(5, 0.7, type="gnp"), "name", value=1:5)
g3 = set.vertex.attribute(erdos.renyi.game(5, 0.7, type="gnp"), "name", value=1:5)

#Create conceptmaps object from three conceptmap objects
simple_cms = conceptmaps(list(conceptmap(g1), conceptmap(g2), conceptmap(g3)))

#Create Pathfinder network from data and return a conceptmap object
cm = pathfinder(simple_cms, q=1, return.cm=TRUE)