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Last data update: 2014.03.03

R: Make or query connected graph of bridging registrations

bridging_graph

R Documentation

Make or query connected graph of bridging registrations

Description

These functions are designed for expert use. In general it is recommended to use xform_brain.

bridging_graph creates an igraph::graph representing all known template brains (vertices) and the bridging registrations connecting them (edges).

shortest_bridging_seq finds the shortest bridging sequence on a graph of all available bridging registrations, subject to constraints defined by graph connectivity and the reciprocal parameter.

Usage

bridging_graph(regdirs = getOption("nat.templatebrains.regdirs"),
  reciprocal = NA)

shortest_bridging_seq(sample, reference, checkboth = TRUE,
  imagedata = FALSE, reciprocal = NA, ...)

Arguments

`regdirs`	Character vector of directories to search for registrations (see details)
`reciprocal`	Sets the weight of reciprocal edges in the graph (and thereby whether inverse registrations will be considered).
`sample`	Source template brain (e.g. IS2) that data is currently in.
`reference`	Target template brain (e.g. IS2) that data should be transformed into.
`checkboth`	When `TRUE` will look for registrations in both directions. See details.
`imagedata`	Whether `x` should be treated as image data (presently only supported as a file on disk or 3D object vertices - see details).
`...`	extra arguments to pass to `xform`.

Details

When reciprocal != NAwe create a graph where each forward transformation is matched by a corresponding inverse transformation with the specified edge weight. The edge weight for forward transforms will always be 1.0.

By default regdirs is set to getOption('nat.templatebrains.regdirs')

Examples

## Not run: 
plot(bridging_graph(reciprocal=3), vertex.size=25)
# the same including
plot(bridging_graph(), vertex.size=25)

## End(Not run)
## Not run: 
shortest_bridging_seq(FCWB, IS2)
# or
shortest_bridging_seq('FCWB', 'IS2')

## End(Not run)