sharpshootR (version 1.8)

component.adj.matrix: Create an adjacency matrix from a data.frame of component data

Description

Create an adjacency matrix from SSURGO component data

Usage

component.adj.matrix(d, mu='mukey', co='compname', wt='comppct_r', 
method='community.matrix', standardization='max', metric='jaccard',
rm.orphans=TRUE, similarity=TRUE, return.comm.matrix=FALSE)

Arguments

d

a data.frame, typically of SSURGO data

mu

name of the column containing the map unit ID (typically 'mukey')

co

name of the column containing the component ID (typically 'compname')

wt

name of the column containing the component weight percent (typically 'comppct_r')

method

one of either: `community.matrix`, or `occurrence`; see details

standardization

community matrix standardization method, passed to decostand

metric

community matrix dissimilarity metric, passed to vegdist

rm.orphans

logical, should map units with a single component be ommitted? (typically yes)

similarity

logical, return a similarity matrix? (if FALSE, a distance matrix is returned)

return.comm.matrix

logical, return pseudo-community matrix? (if TRUE no adjacency matrix is created)

Value

a similatiy matrix / ajacency matrix suitable for use with igraph functions or anything else that can accomodate a _similarity_ matrix.

Details

Pending...

Examples

# NOT RUN {
# load sample data set
data(amador)

# convert into adjacency matrix
m <- component.adj.matrix(amador)

# plot network diagram, with Amador soil highlighted
plotSoilRelationGraph(m, s='amador')
# }