R: Summarize and Print Features of a cna Network Graph

print.cna {bio3d} | R Documentation

## Summarize and Print Features of a cna Network Graph

### Description

These functions attempt to summarize and print a cna network graph to the terminal in a human readable form.

### Usage

      ## S3 method for class 'cna'
    print(x, ...)
      ## S3 method for class 'cna'
    summary(object, verbose=TRUE, ...)

### Arguments

`x` | A cna network and community object as obtained from the function ‘cna’.
`object` | A cna network and community object as obtained from the function ‘cna’.
`verbose` | Logical, if TRUE a community summary table is prited to screen.
`...` | Extra arguments passed to the ‘write.table’ function.

### Details

Simple summary and print methods for protein dynamic networks.

### Value

The function summary.cna returns a list with the following components:

`id` | A community number/identifier vector with an element for each community.
`size` | A numeric community size vector, with elements giving the number of nodes within each community.
`members` | A lst detailing the nodes within each community.

### Author(s)

Guido Scarabelli and Barry Grant

### References

Grant, B.J. et al. (2006) Bioinformatics 22, 2695–2696.

### See Also

`cna`, `print.igraph`, `str.igraph`, `igraph.plotting`

### Examples

    if (!requireNamespace("igraph", quietly = TRUE)) {
       message('Need igraph installed to run this example')
    } else {

    ## Load the correlation network
    attach(hivp)

    ## Read the starting PDB file to determine atom correspondence
    pdbfile <- system.file("examples/hivp.pdb", package="bio3d")
    pdb <- read.pdb(pdbfile)

    ## Examine network composition
    print(net)
    x<- summary(net)
    x$members[[2]]

    detach(hivp)

    }

[Package bio3d version 2.4-2 Index]