Hierarchical Model of Species Communities


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Documentation for package ‘Hmsc’ version 3.3-7

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alignPosterior alignPosterior
biPlot biPlot
c.Hmsc Combine Posterior Samples of Several Hmsc Models
computeAssociations computeAssociations
computeDataParameters computeDataParameters
computeInitialParameters computeInitialParameters
computePredictedValues computePredictedValues
computeSAIR computeSAIR
computeVariancePartitioning computeVariancePartitioning
computeWAIC computeWAIC
constructGradient constructGradient
constructKnots constructKnots
convertToCodaObject convertToCodaObject
coralCombine coralCombine
coralGetRareSpeciesPriors coralGetRareSpeciesPriors
coralGetXDataExt coralGetXDataExt
coralPlotBeta coralPlotBeta
coralPredict coralPredict
coralPreprocess coralPreprocess
coralSplitToBatches coralSplitToBatches
coralTrain coralTrain
createPartition createPartition
evaluateModelFit evaluateModelFit
getPostEstimate getPostEstimate
Hmsc Hmsc
HmscRandomLevel Create an 'Hmsc' random level
importPosteriorFromHPC importPosteriorFromHPC
pcomputePredictedValues computePredictedValues
plotBeta plotBeta
plotGamma plotGamma
plotGradient plotGradient
plotVariancePartitioning plotVariancePartitioning
poolMcmcChains poolMcmcChains
predict.Hmsc predict
predictLatentFactor predictLatentFactor
prepareGradient prepareGradient
sampleMcmc sampleMCMC
samplePrior samplePrior
setPriors setPriors
setPriors.Hmsc setPriors.Hmsc
setPriors.HmscRandomLevel setPriors.HmscRandomLevel
TD Simulated data and a fitted Hmsc model for a small species community.