Perc                    Perc.
as.conflictmat          convert to a matrix of 'conf.mat' class
bradleyTerry            Computes the MLE for the BT model using an MM
                        algorithm
bt.test                 Systemic test for the assumptions of the
                        Bradley-Terry model
conductance             compute win-loss probabilities
countPaths              count paths between all pairs
dyadicLongConverter     dyadic long format converter
findAllPaths            Identifies all paths between all pairs of less
                        than or equal to a certain length
findIDpaths             find all paths of a certain length for an
                        individual
getAllCosts             Associate each costs with its corresponding
                        simulated annealing runs
getAllRankOrder         assign IDs to all best rank orders
getBestRankOrder        assign IDs to the best rank order
getSimOutput            get useful outputs from simulated annealing
                        processes
individualDomProb       individual-level probability converter
plotConfmat             generate heat map for a matrix
plotProbDiagnosis       Diagnosis Plot 'plotProbDiagnosis' generate
                        heat map for dominance probability matrix
sampleEdgelist          sampleEdgelist. social interactions among 11
                        monkeys
sampleRawMatrix         sampleRawMatrix. dominance interactions between
                        39 monkeys
sampleWeightedEdgelist
                        sampleWeightedEdgelist. dominance interactions
                        among 29 monkeys
simRankOrder            Find rank order using simulated annealing
transitivity            calculate transitivity measurements for a
                        matrix
valueConverter          win-loss probability matrix value converter
