component.adj.matrix: Create an adjacency matrix from a data.frame of component...
In sharpshootR: A Soil Survey Toolkit

Description Usage Arguments Details Value Author(s) Examples

Create an adjacency matrix from SSURGO component data

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

`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)

Pending...

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

D.E. Beaudette

# 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')