convertion              this function convert graph matrix form into
                        graph edge form
decomp                  decompose the weighted graph into directional
                        single connected graphs and a non-connected
                        graph
find.ranks              make food trophic ranks for all the species in
                        the matrix for fplot.foodweb function
fplot                   Another way to plot network structure based on
                        similar vertex will be grouped together, while
                        dissimilar nodes/vertex will depart from each
                        others.
fplot.foodweb           a special group graph plot function for food
                        web-style hierarchical structure
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 will be grouped together, while
                        dissimilar nodes/vertex will depart from each
                        others.
groupplot.foodweb       a special group graph plot function for food
                        web-style hierarchical structure
largest.weight          find out the food chain with largest weights
                        among all food chains that are linked to a
                        given species
lclw                    find the largest weight food chain among the
                        candidate longest food chains for a given node
                        (species)
longest.chain           find out the food chain with longest length
                        among all food chains that are linked to a
                        given species
loop-package            an R package for analyzing and plotting
                        directed networks
loop.forward            forward method to decompose the weighted graph
                        into single connected graphs
loop.random             a random method to decompose the weighted graph
                        into single connected graphs
mst.primm               Primm's algorithm to search minimum spanning
                        tree
nmds.ordination         perform non-dimensional scaling of the nodes by
                        employing the function 'isoMDS' from package
                        'MASS'
node.similarity         calculate pair similarity of nodes based on the
                        nodes' similarity which have links with the
                        focused pair of nodes
pathways                enumerate all food chains that are linked to a
                        given species/node
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 chains that are linked to a
                        given species
smallest.weight         find out the food chain with shortest weight
                        among all food chains that are linked to a
                        given species
uniquepaths             enumerate all unique food chains that are
                        linked to a given species/node
