glmmrBase0.10.5 package

Generalised Linear Mixed Models in R

Beta

Beta distribution declaration

coef.mcml

Extracts fixed effect coefficients from a mcml object

coef.Model

Extracts coefficients from a Model object

confint.mcml

Fixed effect confidence intervals for a mcml object

Covariance

R6 Class representing a covariance function and data

cross_df

Generate crossed block structure

cycles

Generates all the orderings of a

family.mcml

Extracts the family from a mcml object.

family.Model

Extracts the family from a Model object. This information can also b...

fitted.mcml

Fitted values from a mcml object

fitted.Model

Extract or generate fitted values from a Model object

fixed.effects

Extracts the fixed effect estimates

formula.mcml

Extracts the formula from a mcml object.

formula.Model

Extracts the formula from a Model object

glmmrBase-package

tools:::Rd_package_title("glmmrBase")

hessian_from_formula

Automatic differentiation of formulae

lme4_to_glmmr

Map lme4 formula to glmmrBase formula

logLik.mcml

Extracts the log-likelihood from an mcml object

logLik.Model

Extracts the log-likelihood from an mcml object

match_rows

Generate matrix mapping between data frames

mcml_glmer

lme4 style generlized linear mixed model

mcml_lmer

lme4 style linear mixed model

mcnr_family

Returns the file name and type for MCNR function

MeanFunction

R6 Class representing a mean function/linear predictor

Model

A GLMM Model

nelder

Generates a block experimental structure using Nelder's formula

nest_df

Generate nested block structure

predict.mcml

Predict from a mcml object

predict.Model

Generate predictions at new values from a Model object

print.mcml

Prints an mcml fit output

progress_bar

Generates a progress bar

Quantile

Family declaration to support quantile regression

random.effects

Extracts the random effect estimates

residuals.mcml

Residuals method for a mcml object

residuals.Model

Extract residuals from a Model object

setParallel

Disable or enable parallelised computing

summary.mcml

Summarises an mcml fit output

summary.Model

Summarizes a Model object

vcov.mcml

Extract the Variance-Covariance matrix for a mcml object

vcov.Model

Calculate Variance-Covariance matrix for a Model object

Specification, analysis, simulation, and fitting of generalised linear mixed models. Includes Markov Chain Monte Carlo Maximum likelihood and Laplace approximation model fitting for a range of models, non-linear fixed effect specifications, a wide range of flexible covariance functions that can be combined arbitrarily, robust and bias-corrected standard error estimation, power calculation, data simulation, and more. See <https://samuel-watson.github.io/glmmr-web/> for a detailed manual.

  • Maintainer: Sam Watson
  • License: GPL (>= 2)
  • Last published: 2024-09-07