R: Explicit Interaction Community Models

# Explicit Interaction Community Models

## Documentation for package ‘eicm’ version 1.0.3

- DESCRIPTION file
- User guides, package vignettes and other documentation
- Package README

## Help Pages

eicm-package | eicm: Explicit Interaction Community Models
as.eicm | Define a parameterized EICM model
coef.eicm | Extract EICM model coefficients
coefficientComparisonPlot | Diagnostic monitor plots for EICM
confint.eicm | Confidence intervals for EICM parameters
eicm | Fit and select an Explicit Interaction Community Model (EICM)
eicm.data | Define a data object for a EICM model
eicm.fit | Estimate a EICM model
eicm.matrix | Define a model object for a EICM model
eicm.options | Set EICM fitting options
generateEICM | Generate EICM model following a Beta frequency distribution
interactionPlot | Compare two interaction matrices
isCyclic | Is the adjacency matrix a cyclic graph?
logLik.eicm | EICM (penalized) log-likelihood
plot.confint.eicm | Plot EICM estimates and confidence intervals
plot.eicm | Quick plot EICM results
plot.eicm.list | Quick plot EICM results
plot.profile.eicm | Plot EICM likelihood profile
plotNetworkFromMatrix | Plot graphs from adjacency matrices
predict.eicm | Predict method for EICM fits
print.eicm.matrix | Print EICM model matrix
profile.eicm | Likelihood profiles for EICMs
truemodel | A parameterized EICM model for simulation