loop: loop decomposition of weighted directed graphs for life cycle analysis, providing flexbile network plotting methods, and analyzing food chain properties in ecology

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The program can perform loop analysis and plot network structure (especially for food webs),including minimum spanning tree, loop decomposition of weighted directed graphs, and other network properties which may be related to food chain properties in ecology.

Author
Youhua Chen
Date of publication
2012-10-01 05:51:43
Maintainer
Youhua Chen <haydi@126.com>
License
GPL-2
Version
1.1

View on CRAN

Man pages

convertion
this function convert graph matrix form into graph edge form
decomp
decompose the weighted graph into directional single...
find.ranks
make food trophic ranks for all the species in the matrix for...
fplot
Another way to plot network structure based on similar vertex...
fplot.foodweb
a special group graph plot function for food web-style...
gplot
make a plot for directional graph from edge matrix graph form
gplot1
plot directed graphs directly from square graph matrix
groupplot
A group way to plot network structure based on similar vertex...
groupplot.foodweb
a special group graph plot function for food web-style...
largest.weight
find out the food chain with largest weights among all food...
lclw
find the largest weight food chain among the candidate...
longest.chain
find out the food chain with longest length among all food...
loop.forward
forward method to decompose the weighted graph into single...
loop-package
an R package for analyzing and plotting directed networks
loop.random
a random method to decompose the weighted graph into single...
mst.primm
Primm's algorithm to search minimum spanning tree
nmds.ordination
perform non-dimensional scaling of the nodes by employing the...
node.similarity
calculate pair similarity of nodes based on the nodes'...
pathways
enumerate all food chains that are linked to a given...
rank.nodes
rank nodes based on the inward links/outward links/both links
shortest.chain
find out the food chain with shortest length among all food...
smallest.weight
find out the food chain with shortest weight among all food...
uniquepaths
enumerate all unique food chains that are linked to a given...

Files in this package

loop
loop/MD5
loop/R
loop/R/loop.R
loop/NAMESPACE
loop/man
loop/man/uniquepaths.Rd
loop/man/smallest.weight.Rd
loop/man/shortest.chain.Rd
loop/man/rank.nodes.Rd
loop/man/pathways.Rd
loop/man/node.similarity.Rd
loop/man/nmds.ordination.Rd
loop/man/mst.primm.Rd
loop/man/loop.random.Rd
loop/man/loop.forward.Rd
loop/man/loop-package.Rd
loop/man/longest.chain.Rd
loop/man/lclw.Rd
loop/man/largest.weight.Rd
loop/man/groupplot.Rd
loop/man/groupplot.foodweb.Rd
loop/man/gplot1.Rd
loop/man/gplot.Rd
loop/man/fplot.Rd
loop/man/fplot.foodweb.Rd
loop/man/find.ranks.Rd
loop/man/decomp.Rd
loop/man/convertion.Rd
loop/DESCRIPTION