Finds Missing Links and Metric Confidence Intervals in Ecological Bipartite Networks

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Documentation for package ‘cassandRa’ version 0.1.0

• DESCRIPTION file.
• User guides, package vignettes and other documentation.
• Package NEWS.

Help Pages

EcoLinkPredict-package	Predicting Missing Links
CalcHostLevelCoverage	Estimated probabilities of missing links based on the host Level Coverage Deficit
ComputeCI	Compute Basic Confidence Intervals
CoverageEstimator	Coverage Estimator, using Chao1 Index, Turing-Good or Binomial depending on what is possible
CreateListObject	Generates a network list from a food web
EcoLinkPredict	Predicting Missing Links
FitAllModels	Fit all the models
FitBothMandC	Fit Matching-Centrality Model
FitCentrality	Fit Centrality Model
FitMatching	Fit Latent Trait (Matching Model)
FitSBM	Fit SBM Model
make_true_and_sample_web	Make an artificial bipartite networks with some properties of ecological networks, then sample from it
Optimiser	Optimiser wrapper for network models
Optimise_SBM	Custom optimiser function for SBM models
PlotFit	Plot the fitted network models
PlotRarefaction	Plot Metric Response To Network Rarefaction
PredictLinks	Generates a network list from a food web and fits all network models
RarefyNetwork	Recalculate Network Metrics With Rarefied Webs
SortResponseCategory	Adds a dataframe that defines each interaction as true positive, false negative or true negative
TestAllModels	Test the models by AUC
TestAUC	Test via AUC the predictive capacity of each model or combination of models